Citrus Sinensis ID: 039177

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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---
Protein Sequence
MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKMEG
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHcccHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MVRSSALKRANLHLrkhrkwplspykakwhqTLDQQQAKQNVkqslttpptkqqqqipkqphiLSSLLHSfsiyncepppeaYHFVIKTLAensqfcdisSVLDHIekrenfetpeFIFIDLIKTYADahrfqdsvnlfykipkfriNRVGFAIEILNCMindgfcvdgkTCSLILSSVceqrdlssDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQmksdgikpdiVCYTMVLNGVIVQEDYVKAEELFDELLVlglvpdvytyNVYINGLCKQNNVEAGIKMIACMEelgskpdviTYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNkglctqssmfdETICGLCQRGLVRKALELLKQMadkdvspgARVWEALLLSSVSKLDFVNTSFIRLVDQILntpckmeg
Flexible Loop (DISEMBL)
mvrssalkranlhlrkhrkwplspYKAKWHQTLDQQQAKQNVKQSLTtpptkqqqqipKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNqmksdgikPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKMEG
Low Complexity Region (SEG)
MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVkqslttpptkqqqqipkqphilssllhsfsiYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKMEG
Disordered region (IsUnstruct)
**************************************************************ILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNT******
Disordered Region (DISOPRED)
MV*****KRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKME*
Disordered Region (DISEMBL)
MVRSSALKRANLHLRKHRKWPLSPYKAK*******************************QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKMEG
Disordered Region (DISPRO)
*VRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKM**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQILNTPCKMEG
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	453	2.2.26 [Sep-21-2011]
Q8L6Y7	453	Pentatricopeptide repeat-	yes	no	0.880	0.880	0.404	2e-92
Q0WVK7	741	Pentatricopeptide repeat-	no	no	0.573	0.350	0.306	2e-33
Q9FIT7	974	Pentatricopeptide repeat-	no	no	0.843	0.392	0.268	5e-33
Q9T0D6	566	Pentatricopeptide repeat-	no	no	0.704	0.563	0.268	5e-31
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.768	0.476	0.267	2e-30
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.593	0.434	0.278	4e-30
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.642	0.385	0.265	4e-29
O49436	660	Pentatricopeptide repeat-	no	no	0.739	0.507	0.258	1e-28
Q9FJE6	907	Putative pentatricopeptid	no	no	0.635	0.317	0.280	1e-28
Q9SXD8	634	Pentatricopeptide repeat-	no	no	0.596	0.425	0.272	2e-28

>sp|Q8L6Y7|PP193_ARATH Pentatricopeptide repeat-containing protein At2g38420, mitochondrial OS=Arabidopsis thaliana GN=At2g38420 PE=2 SV=2

 Score =  340 bits (871), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 186/460 (40%), Positives = 276/460 (60%), Gaps = 61/460 (13%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M RSS+  R +  +RK+RK P S +K KW++ L Q+ A + ++ +L T          + 
Sbjct: 1   MARSSSWHRMSNFMRKYRKIPHSSFKTKWNENLKQKYAMEELRSNLLTDS--------EN 52

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFI 120
             ++ +LL SF ++NCEP P+AY FVIKTLA++SQ  +ISSVL H+E  E F+TPE IF 
Sbjct: 53  ASVMRTLLSSFQLHNCEPTPQAYRFVIKTLAKSSQLENISSVLYHLEVSEKFDTPESIFR 112

Query: 121 DLIKTYADAHRFQDSVNLFYKIPKFR---------------------------------- 146
           D+I  Y  + R ++++ +F+KIP FR                                  
Sbjct: 113 DVIAAYGFSGRIEEAIEVFFKIPNFRCVPSAYTLNALLLVLVRKRQSLELVPEILVKACR 172

Query: 147 -------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS 187
                              I  V  A E++  M  D   VD +  S +LSSVC+ +D S 
Sbjct: 173 MGVRLEESTFGILIDALCRIGEVDCATELVRYMSQDSVIVDPRLYSRLLSSVCKHKDSSC 232

Query: 188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV 247
            +++G++++++K  F  G+ DYT V+R LV+  +  + + +LNQMK D ++PD+VCYT+V
Sbjct: 233 FDVIGYLEDLRKTRFSPGLRDYTVVMRFLVEGGRGKEVVSVLNQMKCDRVEPDLVCYTIV 292

Query: 248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS 307
           L GVI  EDY KA++LFDELL+LGL PDVYTYNVYINGLCKQN++E  +KM++ M +LGS
Sbjct: 293 LQGVIADEDYPKADKLFDELLLLGLAPDVYTYNVYINGLCKQNDIEGALKMMSSMNKLGS 352

Query: 308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG 367
           +P+V+TYN L++AL K  +L+R + L KEM+  G+  N  T+ IMI       +++ A G
Sbjct: 353 EPNVVTYNILIKALVKAGDLSRAKTLWKEMETNGVNRNSHTFDIMISAYIEVDEVVCAHG 412

Query: 368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM 407
           LLEEA N  +  +SS  +E I  LC++GL+ +A+ELL  +
Sbjct: 413 LLEEAFNMNVFVKSSRIEEVISRLCEKGLMDQAVELLAHL 452

Arabidopsis thaliana (taxid: 3702)

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

 Score =  144 bits (362), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 86/281 (30%), Positives = 144/281 (51%), Gaps = 21/281 (7%)

Query: 163 DGFCVDG--KTCSLILSSVCEQRDLSSDELL------GFVQ--EMKKLG------FCFGM 206
           DGFC  G  +  S     +   RD++ D L       GF Q  +M + G      FC G+
Sbjct: 359 DGFCKRGDIRAASKFFYEM-HSRDITPDVLTYTAIISGFCQIGDMVEAGKLFHEMFCKGL 417

Query: 207 ----VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEE 262
               V +T +I    K   + DA  + N M   G  P++V YT +++G+  + D   A E
Sbjct: 418 EPDSVTFTELINGYCKAGHMKDAFRVHNHMIQAGCSPNVVTYTTLIDGLCKEGDLDSANE 477

Query: 263 LFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC 322
           L  E+  +GL P+++TYN  +NGLCK  N+E  +K++   E  G   D +TY TL+ A C
Sbjct: 478 LLHEMWKIGLQPNIFTYNSIVNGLCKSGNIEEAVKLVGEFEAAGLNADTVTYTTLMDAYC 537

Query: 323 KVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSS 382
           K  E+++ +E++KEM  KG+   + T++++++G    G + +   LL   L KG+   ++
Sbjct: 538 KSGEMDKAQEILKEMLGKGLQPTIVTFNVLMNGFCLHGMLEDGEKLLNWMLAKGIAPNAT 597

Query: 383 MFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL 423
            F+  +   C R  ++ A  + K M  + V P  + +E L+
Sbjct: 598 TFNSLVKQYCIRNNLKAATAIYKDMCSRGVGPDGKTYENLV 638

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIT7|PP442_ARATH Pentatricopeptide repeat-containing protein At5g61990, mitochondrial OS=Arabidopsis thaliana GN=At5g61990 PE=2 SV=1

 Score =  142 bits (358), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 113/421 (26%), Positives = 184/421 (43%), Gaps = 39/421 (9%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M +   +++A           L P    +   ++    ++NV+Q        +++ I   
Sbjct: 357 MSKEGVMEKAKALFDGMIASGLIPQAQAYASLIEGYCREKNVRQGYELLVEMKKRNIVIS 416

Query: 61  PHILSSLLHSF-------SIYN---------CEPPPEAYHFVIKTLAENSQFCDISSVLD 104
           P+   +++            YN         C P    Y  +IKT  +NS+F D   VL 
Sbjct: 417 PYTYGTVVKGMCSSGDLDGAYNIVKEMIASGCRPNVVIYTTLIKTFLQNSRFGDAMRVLK 476

Query: 105 HIEKRENFETPE-FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIND 163
             E +E    P+ F +  LI   + A R  ++ +              F +E    M+ +
Sbjct: 477 --EMKEQGIAPDIFCYNSLIIGLSKAKRMDEARS--------------FLVE----MVEN 516

Query: 164 GFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVF 223
           G   +  T    +S   E  + +S +   +V+EM++ G     V  T +I    KK KV 
Sbjct: 517 GLKPNAFTYGAFISGYIEASEFASAD--KYVKEMRECGVLPNKVLCTGLINEYCKKGKVI 574

Query: 224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI 283
           +A      M   GI  D   YT+++NG+   +    AEE+F E+   G+ PDV++Y V I
Sbjct: 575 EACSAYRSMVDQGILGDAKTYTVLMNGLFKNDKVDDAEEIFREMRGKGIAPDVFSYGVLI 634

Query: 284 NGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV 343
           NG  K  N++    +   M E G  P+VI YN LL   C+  E+ + +EL+ EM  KG+ 
Sbjct: 635 NGFSKLGNMQKASSIFDEMVEEGLTPNVIIYNMLLGGFCRSGEIEKAKELLDEMSVKGLH 694

Query: 344 LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALEL 403
            N  TY  +IDG    GD+ EA  L +E   KGL   S ++   + G C+   V +A+ +
Sbjct: 695 PNAVTYCTIIDGYCKSGDLAEAFRLFDEMKLKGLVPDSFVYTTLVDGCCRLNDVERAITI 754

Query: 404 L 404
            
Sbjct: 755 F 755

Arabidopsis thaliana (taxid: 3702)

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

 Score =  135 bits (341), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 87/324 (26%), Positives = 166/324 (51%), Gaps = 5/324 (1%)

Query: 100 SSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNC 159
           ++++D   K+   E  + +F ++ K    A+    +V L   + K  + + GF  E+   
Sbjct: 202 TTLIDGCCKKGEIEKAKDLFFEMGKLGLVANERTYTV-LINGLFKNGVKKQGF--EMYEK 258

Query: 160 MINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKK 219
           M  DG   +  T + +++ +C  +D  + +      EM++ G    +V Y  +I  L ++
Sbjct: 259 MQEDGVFPNLYTYNCVMNQLC--KDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGLCRE 316

Query: 220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTY 279
            K+ +A  +++QMKSDGI P+++ Y  +++G        KA  L  +L   GL P + TY
Sbjct: 317 MKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSLVTY 376

Query: 280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKW 339
           N+ ++G C++ +     KM+  MEE G KP  +TY  L+    +   + +  +L   M+ 
Sbjct: 377 NILVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEE 436

Query: 340 KGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK 399
            G+V ++ TYS++I G   KG + EA  L +  + K       +++  I G C+ G   +
Sbjct: 437 LGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMILGYCKEGSSYR 496

Query: 400 ALELLKQMADKDVSPGARVWEALL 423
           AL+LLK+M +K+++P    +  ++
Sbjct: 497 ALKLLKEMEEKELAPNVASYRYMI 520

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMF6|PP444_ARATH Pentatricopeptide repeat-containing protein At5g64320, mitochondrial OS=Arabidopsis thaliana GN=At5g64320 PE=2 SV=1

 Score =  134 bits (336), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 101/377 (26%), Positives = 181/377 (48%), Gaps = 29/377 (7%)

Query: 67  LLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTY 126
           LL    +  C P  E ++ VI  L +  +  + + +++ +  R  F   +  +  L+   
Sbjct: 274 LLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNRMLIR-GFAPDDITYGYLMNGL 332

Query: 127 ADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGK------------TCSL 174
               R   + +LFY+IPK  I        I N +I+ GF   G+            T   
Sbjct: 333 CKIGRVDAAKDLFYRIPKPEI-------VIFNTLIH-GFVTHGRLDDAKAVLSDMVTSYG 384

Query: 175 ILSSVCEQRDL----SSDELLGF----VQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL 226
           I+  VC    L      + L+G     + +M+  G    +  YT ++    K  K+ +A 
Sbjct: 385 IVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLGKIDEAY 444

Query: 227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL 286
            +LN+M +DG+KP+ V +  +++    +    +A E+F E+   G  PDVYT+N  I+GL
Sbjct: 445 NVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVYTFNSLISGL 504

Query: 287 CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNL 346
           C+ + ++  + ++  M   G   + +TYNTL+ A  +  E+   R+LV EM ++G  L+ 
Sbjct: 505 CEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEARKLVNEMVFQGSPLDE 564

Query: 347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQ 406
            TY+ +I GL   G++ +A  L E+ L  G    +   +  I GLC+ G+V +A+E  K+
Sbjct: 565 ITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISCNILINGLCRSGMVEEAVEFQKE 624

Query: 407 MADKDVSPGARVWEALL 423
           M  +  +P    + +L+
Sbjct: 625 MVLRGSTPDIVTFNSLI 641

Arabidopsis thaliana (taxid: 3702)

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

 Score =  132 bits (333), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 76/273 (27%), Positives = 148/273 (54%), Gaps = 4/273 (1%)

Query: 173 SLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQM 232
           S+++ S+C  +D S D+ L    EM+  G    +V Y+++I  L    K  D   +L +M
Sbjct: 249 SIVIDSLC--KDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREM 306

Query: 233 KSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV 292
               I PD+V ++ +++  + +   ++A+EL++E++  G+ PD  TYN  I+G CK+N +
Sbjct: 307 IGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCL 366

Query: 293 EAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIM 352
               +M   M   G +PD++TY+ L+ + CK + ++    L +E+  KG++ N  TY+ +
Sbjct: 367 HEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTL 426

Query: 353 IDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDV 412
           + G    G +  A  L +E +++G+      +   + GLC  G + KALE+ ++M    +
Sbjct: 427 VLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRM 486

Query: 413 SPGARVWEALL--LSSVSKLDFVNTSFIRLVDQ 443
           + G  ++  ++  + + SK+D   + F  L D+
Sbjct: 487 TLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDK 519

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFF1|PP281_ARATH Pentatricopeptide repeat-containing protein At3g53700, chloroplastic OS=Arabidopsis thaliana GN=MEE40 PE=2 SV=1

 Score =  129 bits (325), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 79/298 (26%), Positives = 147/298 (49%), Gaps = 7/298 (2%)

Query: 126 YADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDL 185
           + D + F   VN   K        V  AIEI++ M+ +G+  D  T + ++S +C+  ++
Sbjct: 292 FPDQYTFNTLVNGLCKA-----GHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEV 346

Query: 186 SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT 245
              E +  + +M         V Y  +I +L K+ +V +A  +   + S GI PD+  + 
Sbjct: 347 K--EAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFN 404

Query: 246 MVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL 305
            ++ G+ +  ++  A ELF+E+   G  PD +TYN+ I+ LC +  ++  + M+  ME  
Sbjct: 405 SLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELS 464

Query: 306 GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA 365
           G    VITYNTL+   CK  +     E+  EM+  G+  N  TY+ +IDGL     + +A
Sbjct: 465 GCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDA 524

Query: 366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL 423
             L+++ + +G       ++  +   C+ G ++KA ++++ M      P    +  L+
Sbjct: 525 AQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDIVTYGTLI 582

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|O49436|PP327_ARATH Pentatricopeptide repeat-containing protein At4g20090 OS=Arabidopsis thaliana GN=EMB1025 PE=3 SV=1

 Score =  128 bits (321), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 93/360 (25%), Positives = 173/360 (48%), Gaps = 25/360 (6%)

Query: 86  VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYK-IPK 144
           +I++ A +  F  +  +L  I + EN    E  FI + + Y  AH    +V+LF++ + +
Sbjct: 83  MIESYANSGDFDSVEKLLSRI-RLENRVIIERSFIVVFRAYGKAHLPDKAVDLFHRMVDE 141

Query: 145 FRINR-VGFAIEILNCMINDGF--------------------CVDGKTCSLILSSVCEQR 183
           FR  R V     +LN +IN+G                       +G + +L++ ++C+ R
Sbjct: 142 FRCKRSVKSFNSVLNVIINEGLYHRGLEFYDYVVNSNMNMNISPNGLSFNLVIKALCKLR 201

Query: 184 DLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVC 243
            +  D  +   + M +         Y  ++  L K+E++ +A+ +L++M+S+G  P  V 
Sbjct: 202 FV--DRAIEVFRGMPERKCLPDGYTYCTLMDGLCKEERIDEAVLLLDEMQSEGCSPSPVI 259

Query: 244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACME 303
           Y ++++G+  + D  +  +L D + + G VP+  TYN  I+GLC +  ++  + ++  M 
Sbjct: 260 YNVLIDGLCKKGDLTRVTKLVDNMFLKGCVPNEVTYNTLIHGLCLKGKLDKAVSLLERMV 319

Query: 304 ELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDII 363
                P+ +TY TL+  L K R       L+  M+ +G  LN   YS++I GL  +G   
Sbjct: 320 SSKCIPNDVTYGTLINGLVKQRRATDAVRLLSSMEERGYHLNQHIYSVLISGLFKEGKAE 379

Query: 364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL 423
           EA  L  +   KG      ++   + GLC+ G   +A E+L +M      P A  + +L+
Sbjct: 380 EAMSLWRKMAEKGCKPNIVVYSVLVDGLCREGKPNEAKEILNRMIASGCLPNAYTYSSLM 439

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJE6|PP437_ARATH Putative pentatricopeptide repeat-containing protein At5g59900 OS=Arabidopsis thaliana GN=At5g59900 PE=3 SV=1

 Score =  128 bits (321), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 82/292 (28%), Positives = 146/292 (50%), Gaps = 4/292 (1%)

Query: 138 LFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEM 197
           L + + KFR    G A+E+ N M++ G   D    + ++ S+CE +DLS  + +  +  M
Sbjct: 198 LLHGLVKFR--HFGLAMELFNDMVSVGIRPDVYIYTGVIRSLCELKDLSRAKEM--IAHM 253

Query: 198 KKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY 257
           +  G    +V Y  +I  L KK+KV++A+GI   +    +KPD+V Y  ++ G+   +++
Sbjct: 254 EATGCDVNIVPYNVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYGLCKVQEF 313

Query: 258 VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTL 317
               E+ DE+L L   P     +  + GL K+  +E  + ++  + + G  P++  YN L
Sbjct: 314 EIGLEMMDEMLCLRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLFVYNAL 373

Query: 318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL 377
           + +LCK R+ +    L   M   G+  N  TYSI+ID    +G +  A   L E ++ GL
Sbjct: 374 IDSLCKGRKFHEAELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGL 433

Query: 378 CTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSK 429
                 ++  I G C+ G +  A   + +M +K + P    + +L+    SK
Sbjct: 434 KLSVYPYNSLINGHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSK 485

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD8|PPR90_ARATH Pentatricopeptide repeat-containing protein At1g62590 OS=Arabidopsis thaliana GN=At1g62590 PE=2 SV=1

 Score =  127 bits (319), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 74/272 (27%), Positives = 141/272 (51%), Gaps = 2/272 (0%)

Query: 152 FAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTN 211
            A+ +LN M       D    + I+ S+C+ R +  D+ L   +EM+  G    +V Y++
Sbjct: 243 LALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHV--DDALNLFKEMETKGIRPNVVTYSS 300

Query: 212 VIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG 271
           +I  L    +  DA  +L+ M    I P++V +  +++  + +  +V+AE+L+D+++   
Sbjct: 301 LISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRS 360

Query: 272 LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLR 331
           + PD++TYN  +NG C  + ++   +M   M      PDV+TYNTL++  CK + +    
Sbjct: 361 IDPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGT 420

Query: 332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGL 391
           EL +EM  +G+V +  TY+ +I GL   GD   A  + ++ ++ G+      +   + GL
Sbjct: 421 ELFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGL 480

Query: 392 CQRGLVRKALELLKQMADKDVSPGARVWEALL 423
           C  G + KALE+   M   ++     ++  ++
Sbjct: 481 CNNGKLEKALEVFDYMQKSEIKLDIYIYTTMI 512

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	453
224091084	506	predicted protein [Populus trichocarpa]	0.969	0.867	0.563	1e-156
225439604	505	PREDICTED: pentatricopeptide repeat-cont	0.986	0.885	0.488	1e-130
357506483	653	Pentatricopeptide repeat-containing prot	0.964	0.669	0.481	1e-128
356530205	499	PREDICTED: pentatricopeptide repeat-cont	0.980	0.889	0.476	1e-126
449440241	491	PREDICTED: pentatricopeptide repeat-cont	0.929	0.857	0.474	1e-122
147799110	390	hypothetical protein VITISV_013107 [Viti	0.807	0.938	0.517	1e-103
255586345	373	pentatricopeptide repeat-containing prot	0.646	0.785	0.627	1e-99
334184790	453	pentatricopeptide repeat-containing prot	0.880	0.880	0.404	1e-90
22655258	444	unknown protein [Arabidopsis thaliana] g	0.852	0.869	0.404	2e-88
297823723	444	pentatricopeptide repeat-containing prot	0.852	0.869	0.407	1e-83

>gi|224091084|ref|XP_002309173.1| predicted protein [Populus trichocarpa] gi|222855149|gb|EEE92696.1| predicted protein [Populus trichocarpa]

 Score =  558 bits (1439), Expect = e-156,   Method: Compositional matrix adjust.
 Identities = 279/495 (56%), Positives = 347/495 (70%), Gaps = 56/495 (11%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M   ++ K A+  LRKHRKWP SPYKA+WH+  +QQQA Q++KQS   PP   QQ+ P +
Sbjct: 1   MASCTSKKSASFFLRKHRKWPYSPYKARWHRIFNQQQAMQSLKQSALKPP---QQESPNK 57

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFI 120
           PH+LSSL+HSFSIY+ EP P+A+ F+ KTL + SQF  I SVLDH+EK E+FE PE  F 
Sbjct: 58  PHLLSSLIHSFSIYDVEPAPKAFDFIFKTLVKTSQFHHIPSVLDHLEKVESFEPPESTFA 117

Query: 121 DLIKTYADAHRFQDSVNLFYKIPKFR---------------------------------- 146
            LI+ Y   ++  +++ LFY+IPKFR                                  
Sbjct: 118 YLIEVYGRTNKTHEAIELFYRIPKFRCVPSVYSLNTLISVLCRNSKGLKLVPEILLKSQV 177

Query: 147 -------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS 187
                              + +VGFAIE+LNCM+NDGF V+ +  SL+LS +CEQ+D + 
Sbjct: 178 MNIRVEESTFQVLITALCRVRKVGFAIEMLNCMVNDGFIVNAEIYSLLLSCLCEQKDATK 237

Query: 188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV 247
            E++GF+++++KLGF  GMVDY+NVIR LVK ++  DAL +LN MKSD IKPDI CYTMV
Sbjct: 238 FEVIGFLEQLRKLGFFPGMVDYSNVIRFLVKGKRGLDALHVLNHMKSDRIKPDIFCYTMV 297

Query: 248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS 307
           L+GVI  +DY+KA+ELFDELLV GLVPD YTYNVYINGLCKQNNV+AGIKM+A MEELG 
Sbjct: 298 LHGVIEDKDYLKADELFDELLVFGLVPDAYTYNVYINGLCKQNNVQAGIKMVASMEELGC 357

Query: 308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG 367
           KP++ITYN L++ LCKV EL++  ELV+EM  KGI LN+QTY IMIDGLAS G I+EACG
Sbjct: 358 KPNLITYNMLVKQLCKVGELSKAGELVREMGLKGIGLNMQTYRIMIDGLASNGKIVEACG 417

Query: 368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV 427
           L EEAL+KGLCTQS MFDE ICGLC R L  KAL+LL++M  K+VSPGAR W+ALLLSS 
Sbjct: 418 LFEEALDKGLCTQSLMFDEIICGLCHRDLSCKALKLLEKMVGKNVSPGARAWKALLLSSG 477

Query: 428 SKLDFVNTSFIRLVD 442
            KLD V T    LVD
Sbjct: 478 FKLDSVETKLFSLVD 492

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439604|ref|XP_002265961.1| PREDICTED: pentatricopeptide repeat-containing protein At2g38420, mitochondrial-like [Vitis vinifera]

 Score =  472 bits (1215), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 246/504 (48%), Positives = 316/504 (62%), Gaps = 57/504 (11%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M+R  +  + N  LRK RKWPLSPYKA WH+T   +QA Q +K ++         Q P  
Sbjct: 1   MLRPPSFSKTNF-LRKRRKWPLSPYKATWHETFHHRQAMQTLKNTIAN--QSPSPQSPSN 57

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFI 120
              LS L+ SF IYN +P P AY FVI TL    QF  +  +L  +EK E FETPEFIF 
Sbjct: 58  SQFLSILIDSFRIYNSDPTPNAYRFVISTLTRCRQFHHLPPLLHRLEKVEKFETPEFIFT 117

Query: 121 DLIKTYADAHRFQDSVNLFYKIPKFR---------------------------------- 146
           +LIK Y +A+ F+D+V+LF++IP FR                                  
Sbjct: 118 NLIKVYGNANMFEDAVDLFFRIPNFRCVPSVYSLNALLYVLCKRREGLVMVPQILLKSQA 177

Query: 147 -------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS 187
                              I +  +AI ILN M+NDG+ VD K CS+ILSS+CEQ+ LS 
Sbjct: 178 MNIRLEESSFRILVAALCRIKKHNYAIRILNYMLNDGYAVDAKMCSIILSSLCEQKGLSG 237

Query: 188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV 247
           DE+L F++EM+KLGF  G VD  NVIR LVK+  V DALG+ +QMK+DGIKPD V YTM+
Sbjct: 238 DEVLRFMEEMRKLGFYPGRVDCNNVIRFLVKEGMVMDALGVFDQMKTDGIKPDTVSYTMI 297

Query: 248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS 307
           LNGV    DY KA++LFDE+LVLG+VPD++ YNVYIN LCKQNN+E G++M+A M ELG 
Sbjct: 298 LNGVTADGDYEKADDLFDEMLVLGVVPDIHAYNVYINSLCKQNNIEEGVRMLASMRELGC 357

Query: 308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG 367
           KPD +TYN LL+ + KVR+L  +REL +EM+ +G+  N +TY IM+DGL  KG+I E+C 
Sbjct: 358 KPDYVTYNMLLEGMSKVRDLGGMRELAREMELEGVQWNWETYRIMLDGLVGKGEIDESCS 417

Query: 368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV 427
           LLEE L+K      S FDE IC LCQRGLV KAL+L+ +M  K ++PGAR WEALLL SV
Sbjct: 418 LLEEMLDKYFSCWCSTFDEIICELCQRGLVCKALQLVNKMVRKTIAPGARAWEALLLGSV 477

Query: 428 SKLDFVNTSFIRLVDQILNTPCKM 451
            +  F  TS   LV+ I   P ++
Sbjct: 478 -EFSFAETSLTELVNPIQIHPARL 500

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357506483|ref|XP_003623530.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355498545|gb|AES79748.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  464 bits (1194), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 240/498 (48%), Positives = 318/498 (63%), Gaps = 61/498 (12%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           MVR+   K AN +LRK RKWP SPYK  WH    +QQA Q +  +      K Q Q    
Sbjct: 1   MVRNPLSKTANKYLRKFRKWPHSPYKTSWHHNFGEQQAIQILINA------KTQTQNNND 54

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAE--NSQFCDISSVLDHIEKRENFETPEFI 118
           P +LS+L+HSF  Y+ +P P+AY F+IKT+     S   +I  +L+H+E  E FETPEFI
Sbjct: 55  PFLLSTLIHSFKAYHTDPSPKAYFFLIKTITNINTSHLHEIPHILNHLEHNEKFETPEFI 114

Query: 119 FIDLIKTYADAHRFQDSVNLFYKIPKFR-------------------------------- 146
           F+ LI+ Y    R QD+V+LF++IP+FR                                
Sbjct: 115 FMYLIRFYGFNDRVQDAVDLFFRIPRFRCTPTVCSLNLLLSLLCGKRECLRMVPDILLKS 174

Query: 147 ---------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDL 185
                                I RV +AI+++NCM+ DG+C+D K CSLI+SS+CEQ DL
Sbjct: 175 RDMKIRLEESSFWVLIKALCRIKRVDYAIKMMNCMVEDGYCLDDKICSLIISSLCEQNDL 234

Query: 186 SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT 245
           +S E L     M+KLGFC G++D TN+IR LVK+ K  DAL ILNQ+K DGIKPDIVCYT
Sbjct: 235 TSVEALVVWGNMRKLGFCPGVMDCTNMIRFLVKEGKGMDALEILNQLKEDGIKPDIVCYT 294

Query: 246 MVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL 305
           +VL+G++ + DYVK +ELFDE+LVLGLVPDVYTYNVYINGLCKQNN +  +K++  ME+L
Sbjct: 295 IVLSGIVKEGDYVKLDELFDEILVLGLVPDVYTYNVYINGLCKQNNFDEALKIVVSMEKL 354

Query: 306 GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA 365
           G KP+V+TYNTLL ALC   +L + + ++KEM+ KG+ LNL TY IM+DGL  KG+I EA
Sbjct: 355 GCKPNVVTYNTLLGALCMSGDLGKAKRVMKEMRLKGVELNLHTYRIMLDGLVGKGEIGEA 414

Query: 366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS 425
           C LLEE L K    +SS FD  +  +CQ+GL+  AL L+ ++  K   PGA+VWEALLL+
Sbjct: 415 CVLLEEMLEKCFYPRSSTFDSIVHQMCQKGLISDALVLMNKIVAKSFDPGAKVWEALLLN 474

Query: 426 SVSKLDFVNTSFIRLVDQ 443
           S SK+ +  T+F  L+ +
Sbjct: 475 SESKVTYSETTFAGLLSK 492

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356530205|ref|XP_003533674.1| PREDICTED: pentatricopeptide repeat-containing protein At2g38420, mitochondrial-like [Glycine max]

 Score =  458 bits (1179), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 238/499 (47%), Positives = 316/499 (63%), Gaps = 55/499 (11%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           MVR    KRAN +LRK +KWP SPYK  WH    ++QA +N+KQ+     + Q  Q P  
Sbjct: 1   MVRHPLSKRANKYLRKFKKWPHSPYKTSWHHNFGEEQAMKNLKQATLEMDSSQHPQRPNL 60

Query: 61  P--HILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFI 118
           P   +LS+LL SF  Y+ +P P+AY FV+KTL   SQ  DI  VL H+E  E FETPE I
Sbjct: 61  PCPFLLSTLLDSFKAYSIDPTPKAYFFVLKTLTSTSQLQDIPPVLYHLEHLEKFETPESI 120

Query: 119 FIDLIKTYADAHRFQDSVNLFYKIPKFR-------------------------------- 146
            + LI+ Y  + R QD+V+LF++IP+FR                                
Sbjct: 121 LVYLIRFYGLSDRVQDAVDLFFRIPRFRCTPTVCSLNLVLSLLCRKRDCLEMVPEILLKS 180

Query: 147 ---------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDL 185
                                I RVG+AI++LN M+ DG+ +D K CSL++S++CEQ+DL
Sbjct: 181 QHMNIRVEESTFRVLIRALCRIKRVGYAIKMLNFMVEDGYGLDEKICSLVISALCEQKDL 240

Query: 186 SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT 245
           +S E L   ++M+KLGFC G++DYTN+IR LVK+ +  DAL ILNQ K DGIK D+V YT
Sbjct: 241 TSAEALVVWRDMRKLGFCPGVMDYTNMIRFLVKEGRGMDALDILNQQKQDGIKLDVVSYT 300

Query: 246 MVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL 305
           MVL+G++ + +YV  +ELFDE+LV+GL+PD YTYNVYINGLCKQNNV   ++++A MEEL
Sbjct: 301 MVLSGIVAEGEYVMLDELFDEMLVIGLIPDAYTYNVYINGLCKQNNVAEALQIVASMEEL 360

Query: 306 GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA 365
           G KP+V+TYNTLL AL    +  + REL+KEM WKG+ LNL TY I++DGL  KG+I E+
Sbjct: 361 GCKPNVVTYNTLLGALSVAGDFVKARELMKEMGWKGVGLNLHTYRIVLDGLVGKGEIGES 420

Query: 366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS 425
           C LLEE L K L  +SS FD  I  +CQ+ L  +A+EL K++  K   PGA  WEALLL+
Sbjct: 421 CLLLEEMLEKCLFPRSSTFDNIIFQMCQKDLFTEAMELTKKVVAKSFLPGASTWEALLLN 480

Query: 426 SVSKLDFVNTSFIRLVDQI 444
           S SKL +   +F  L+  I
Sbjct: 481 SGSKLGYSKATFSGLLGPI 499

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440241|ref|XP_004137893.1| PREDICTED: pentatricopeptide repeat-containing protein At2g38420, mitochondrial-like [Cucumis sativus] gi|449483740|ref|XP_004156675.1| PREDICTED: pentatricopeptide repeat-containing protein At2g38420, mitochondrial-like [Cucumis sativus]

 Score =  446 bits (1147), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 230/485 (47%), Positives = 308/485 (63%), Gaps = 64/485 (13%)

Query: 5   SALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHIL 64
           S +K++N  LRKHRKWPLS +K KWHQT DQ +A + +KQ+            P QPH+L
Sbjct: 6   SVVKKSNNFLRKHRKWPLSSHKTKWHQTFDQDEALRILKQAAN----------PDQPHLL 55

Query: 65  -SSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLI 123
            S+L+ SF+ Y+C P P AY+FV+KTLA  SQF  I  VL  ++  ENF+TPE+IF+DLI
Sbjct: 56  LSALVTSFTAYSCHPTPNAYYFVLKTLARTSQFHHIPPVLHRLQFLENFQTPEYIFVDLI 115

Query: 124 KTYADAHRFQDSVNLFYKIPKFR------------------------------------- 146
           K Y   +R QD+V LF +IP FR                                     
Sbjct: 116 KLYGRMNRIQDAVTLFRRIPMFRCVPSTLSLNSLLSQLSRNAQGLPIIPDIILNSHSMGI 175

Query: 147 ----------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDEL 190
                           +N+VG A+E+ N MI +G+ ++ + CSLIL+S+C+Q+  S D +
Sbjct: 176 RLEHSTFQILITALCKVNKVGHAMELFNYMITEGYGLNPQICSLILASLCQQKKSSGDVV 235

Query: 191 LGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNG 250
           LGF++EM++ GFC  +VDY+NVI+  V +    DA+ +LN+MK+DG KPDIVCYTMVLNG
Sbjct: 236 LGFLEEMRQKGFCPAVVDYSNVIKFFVTRGMGSDAVDLLNKMKADGFKPDIVCYTMVLNG 295

Query: 251 VIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD 310
           VI   DY  A+ELFDELL+ GLVPD+YTYNVYI+GLCKQ +  AG++MI  ME LG +P+
Sbjct: 296 VIADGDYKMADELFDELLLFGLVPDIYTYNVYIHGLCKQGDSVAGLQMIPHMEALGCQPN 355

Query: 311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLE 370
           VITYN +L++LCK  EL+  R+L  +M+ KG+  NL+T+ IMIDGL   G++IEAC LLE
Sbjct: 356 VITYNVILKSLCKTGELDEARKLRSKMQLKGLAENLRTFRIMIDGLFHNGEVIEACVLLE 415

Query: 371 EALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKL 430
           E L      Q S F E +  LC+R +V KA+ELL  M  K+ SPG + WE LLLSS S+L
Sbjct: 416 EMLGSRFPPQISTFSEILSWLCKRHMVGKAVELLALMVGKNFSPGPKAWEILLLSSESEL 475

Query: 431 DFVNT 435
             V +
Sbjct: 476 TSVKS 480

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147799110|emb|CAN63706.1| hypothetical protein VITISV_013107 [Vitis vinifera]

 Score =  382 bits (982), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 193/373 (51%), Positives = 250/373 (67%), Gaps = 7/373 (1%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M+R  +  + N  LRK RKWPLSPYKA WH+T   +QA Q +K ++         Q P  
Sbjct: 3   MLRPPSFSKTNF-LRKRRKWPLSPYKATWHETFHHRQAMQTLKNTIAN--QSPSPQSPSN 59

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFI 120
              LS L+ SF IYN +P P AY FVI TL    QF  +  +L  +EK E FETPEFIF 
Sbjct: 60  SQFLSILIDSFRIYNSDPTPNAYRFVISTLTRCRQFHHLPPLLHRLEKVEKFETPEFIFT 119

Query: 121 DLIKTYADAH----RFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLIL 176
           +LIK    +     R ++S          RI +  +AI ILN M+NDG+ VD K CS+IL
Sbjct: 120 NLIKILLKSQAMNIRLEESSFRILVAALCRIKKHNYAIRILNYMLNDGYAVDAKMCSIIL 179

Query: 177 SSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDG 236
           SS+CEQ+ LS DE+L F++EM+KLGF  G VD  NVI  LVK+  V DALG+ +QMK+DG
Sbjct: 180 SSLCEQKGLSGDEVLRFMEEMRKLGFYPGRVDCNNVIXFLVKEGMVMDALGVFDQMKTDG 239

Query: 237 IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGI 296
           IKPD V YTM+LNGV    DY KA++LFDE+LVLG+VPD++ YNVYIN LCKQNN+E G+
Sbjct: 240 IKPDTVSYTMILNGVTADGDYEKADDLFDEMLVLGVVPDIHAYNVYINSLCKQNNIEEGV 299

Query: 297 KMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGL 356
           +M+A M ELG KPD + YN LL+ + KVR+L  +REL +EM+ +G+  N +TY IM+DGL
Sbjct: 300 RMLASMRELGCKPDYVXYNMLLEGMSKVRDLGGMRELAREMELEGVQWNWETYRIMLDGL 359

Query: 357 ASKGDIIEACGLL 369
             KG+I E+C L+
Sbjct: 360 VGKGEIDESCSLV 372

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255586345|ref|XP_002533822.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223526239|gb|EEF28557.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  369 bits (948), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 185/295 (62%), Positives = 228/295 (77%), Gaps = 2/295 (0%)

Query: 147 INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM 206
           IN+VG+A+E+ NCMINDGF VD K CSL+LSS+C Q D+SS E++ F+ E++K GFC G+
Sbjct: 69  INKVGYAVEMFNCMINDGFSVDSKICSLLLSSLCYQADISSSEVMRFLGELRKFGFCPGI 128

Query: 207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDE 266
            DY+ VI  LV++    +AL +LNQMK DGIKPDIVCYT VLNGVI    Y KA+ELFDE
Sbjct: 129 KDYSKVINFLVRRGMGMEALNVLNQMKLDGIKPDIVCYTTVLNGVIANGVYSKADELFDE 188

Query: 267 LLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE 326
           LLV GLVPDVYTYNVYI GLCKQNNVEAGI+M+  MEELG KP++ITYN LL+ LCK  E
Sbjct: 189 LLVFGLVPDVYTYNVYIYGLCKQNNVEAGIEMVTSMEELGCKPNLITYNILLEDLCKNGE 248

Query: 327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDE 386
            +R R+LV++M  KGI L +QTY +MI GL S G I++AC LLEEAL+KGLC +   FDE
Sbjct: 249 DSRARDLVRDMGSKGIGLGMQTYKVMIHGLTSGGKIVKACSLLEEALDKGLCPRGLRFDE 308

Query: 387 TICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLV 441
            I GLCQ G + KALELL+++ +K+VSPG RVWE LLL   S ++FV  +FI LV
Sbjct: 309 VIYGLCQTGSICKALELLEKVVNKNVSPGVRVWETLLLK--SNINFVEDTFIDLV 361

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334184790|ref|NP_181376.3| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|218546769|sp|Q8L6Y7.2|PP193_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At2g38420, mitochondrial; Flags: Precursor gi|3395430|gb|AAC28762.1| hypothetical protein [Arabidopsis thaliana] gi|330254441|gb|AEC09535.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  340 bits (871), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 186/460 (40%), Positives = 276/460 (60%), Gaps = 61/460 (13%)

Query: 1   MVRSSALKRANLHLRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQ 60
           M RSS+  R +  +RK+RK P S +K KW++ L Q+ A + ++ +L T          + 
Sbjct: 1   MARSSSWHRMSNFMRKYRKIPHSSFKTKWNENLKQKYAMEELRSNLLTDS--------EN 52

Query: 61  PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFI 120
             ++ +LL SF ++NCEP P+AY FVIKTLA++SQ  +ISSVL H+E  E F+TPE IF 
Sbjct: 53  ASVMRTLLSSFQLHNCEPTPQAYRFVIKTLAKSSQLENISSVLYHLEVSEKFDTPESIFR 112

Query: 121 DLIKTYADAHRFQDSVNLFYKIPKFR---------------------------------- 146
           D+I  Y  + R ++++ +F+KIP FR                                  
Sbjct: 113 DVIAAYGFSGRIEEAIEVFFKIPNFRCVPSAYTLNALLLVLVRKRQSLELVPEILVKACR 172

Query: 147 -------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS 187
                              I  V  A E++  M  D   VD +  S +LSSVC+ +D S 
Sbjct: 173 MGVRLEESTFGILIDALCRIGEVDCATELVRYMSQDSVIVDPRLYSRLLSSVCKHKDSSC 232

Query: 188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV 247
            +++G++++++K  F  G+ DYT V+R LV+  +  + + +LNQMK D ++PD+VCYT+V
Sbjct: 233 FDVIGYLEDLRKTRFSPGLRDYTVVMRFLVEGGRGKEVVSVLNQMKCDRVEPDLVCYTIV 292

Query: 248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS 307
           L GVI  EDY KA++LFDELL+LGL PDVYTYNVYINGLCKQN++E  +KM++ M +LGS
Sbjct: 293 LQGVIADEDYPKADKLFDELLLLGLAPDVYTYNVYINGLCKQNDIEGALKMMSSMNKLGS 352

Query: 308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG 367
           +P+V+TYN L++AL K  +L+R + L KEM+  G+  N  T+ IMI       +++ A G
Sbjct: 353 EPNVVTYNILIKALVKAGDLSRAKTLWKEMETNGVNRNSHTFDIMISAYIEVDEVVCAHG 412

Query: 368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM 407
           LLEEA N  +  +SS  +E I  LC++GL+ +A+ELL  +
Sbjct: 413 LLEEAFNMNVFVKSSRIEEVISRLCEKGLMDQAVELLAHL 452

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|22655258|gb|AAM98219.1| unknown protein [Arabidopsis thaliana] gi|31376375|gb|AAP49514.1| At2g38420 [Arabidopsis thaliana]

 Score =  332 bits (851), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 181/447 (40%), Positives = 269/447 (60%), Gaps = 61/447 (13%)

Query: 14  LRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSI 73
           +RK+RK P S +K KW++ L Q+ A + ++ +L T          +   ++ +LL SF +
Sbjct: 5   MRKYRKIPHSSFKTKWNENLKQKYAMEELRSNLLTDS--------ENASVMRTLLSSFQL 56

Query: 74  YNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQ 133
           +NCEP P+AY FVIKTLA++SQ  +ISSVL H+E  E F+TPE IF D+I  Y  + R +
Sbjct: 57  HNCEPTPQAYRFVIKTLAKSSQLENISSVLYHLEVSEKFDTPESIFRDVIAAYGFSGRIE 116

Query: 134 DSVNLFYKIPKFR----------------------------------------------- 146
           +++ +F+KIP FR                                               
Sbjct: 117 EAIEVFFKIPNFRCVPSAYTLNALLLVLVRKRQSLELVPEILVKACRMGVRLEESTFGIL 176

Query: 147 ------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL 200
                 I  V  A E++  M  D   VD +  S +LSSVC+ +D S  +++G++++++K 
Sbjct: 177 IDALCRIGEVDCATELVRYMSQDSVIVDPRLYSRLLSSVCKHKDSSCFDVIGYLEDLRKT 236

Query: 201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKA 260
            F  G+ DYT V+R LV+  +  + + +LNQMK D ++PD+VCYT+VL GVI  EDY KA
Sbjct: 237 RFSPGLRDYTVVMRFLVEGGRGKEVVSVLNQMKCDRVEPDLVCYTIVLQGVIADEDYPKA 296

Query: 261 EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA 320
           ++LFDELL+LGL PDVYTYNVYINGLCKQN++E  +KM++ M +LGS+P+V+TYN L++A
Sbjct: 297 DKLFDELLLLGLAPDVYTYNVYINGLCKQNDIEGALKMMSSMNKLGSEPNVVTYNILIKA 356

Query: 321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ 380
           L K  +L+R + L KEM+  G+  N  T+ IMI       +++ A GLLEEA N  +  +
Sbjct: 357 LVKAGDLSRAKTLWKEMETNGVNRNSHTFDIMISAYIEVDEVVCAHGLLEEAFNMNVFVK 416

Query: 381 SSMFDETICGLCQRGLVRKALELLKQM 407
           SS  +E I  LC++GL+ +A+ELL  +
Sbjct: 417 SSRIEEVISRLCEKGLMDQAVELLAHL 443

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297823723|ref|XP_002879744.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297325583|gb|EFH56003.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  317 bits (811), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 182/447 (40%), Positives = 268/447 (59%), Gaps = 61/447 (13%)

Query: 14  LRKHRKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSI 73
           +RK+RK P S +K KW++ L Q+ A + ++ +L            +   ++ +L+ SF +
Sbjct: 5   MRKYRKIPQSSFKTKWNENLKQKYAMEELRSNLLADS--------ENGSVMRTLVSSFQL 56

Query: 74  YNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQ 133
           +NCEP P+AY FVI+TLA+ SQ  +I+SVLDH+E  E F+TPE IF D+I  Y  + R +
Sbjct: 57  HNCEPTPQAYRFVIETLAKTSQLENIASVLDHLEVSEKFDTPESIFRDVIAAYGFSGRIE 116

Query: 134 DSVNLFYKIPKF------------------------------------------------ 145
           +++++F+KIP F                                                
Sbjct: 117 EAIDVFFKIPNFRCVPSAYTLNALLLVLVRKRQSLELVPEILVKASRMGVRLEESTFGIL 176

Query: 146 -----RINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL 200
                RI  V  A E++  M  D   VD +  SL+LSSVC+ +D S  +++G++++++K 
Sbjct: 177 INALCRIGEVDCATELVRYMSEDSVIVDPRLYSLLLSSVCKHKDSSCFDVIGYLEDLRKT 236

Query: 201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKA 260
            F  G+ DYT V+R LV+  +  + + +LNQMK D I PD+VCYT+VL GVI  EDY KA
Sbjct: 237 RFLPGLRDYTVVMRFLVEGGRGKEVVSVLNQMKCDRIDPDVVCYTIVLLGVIADEDYPKA 296

Query: 261 EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA 320
           ++LFDELL+LGL PDVYTYNVYINGLCKQN++E  IKM++ M +LGS+P+V+TYN +++ 
Sbjct: 297 DKLFDELLLLGLDPDVYTYNVYINGLCKQNDIEGAIKMMSSMNKLGSEPNVVTYNIVIKG 356

Query: 321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ 380
           L K  +L+R + L KEM+  G+  N  TY IMI       +++ A GLLEEA N  L  +
Sbjct: 357 LVKAGDLSRAKTLWKEMEMNGVNRNSHTYDIMISAYIEVDEVVCAQGLLEEAFNMNLFVK 416

Query: 381 SSMFDETICGLCQRGLVRKALELLKQM 407
           SS  +E I  LC++GL+ KA+ELL  +
Sbjct: 417 SSKIEEVISRLCEKGLMDKAVELLAHL 443

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	453
TAIR|locus:2139732	566	AT4G11690 [Arabidopsis thalian	0.704	0.563	0.268	2e-32
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.593	0.434	0.278	1.2e-31
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.584	0.483	0.273	8.3e-31
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.803	0.498	0.269	1.6e-30
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.653	0.392	0.269	1.7e-30
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.611	0.436	0.270	4.6e-30
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.611	0.463	0.270	7.8e-30
TAIR|locus:2174008	974	AT5G61990 "AT5G61990" [Arabido	0.565	0.262	0.321	1.1e-29
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.737	0.447	0.274	2e-29
TAIR|locus:2084978	602	AT3G04760 [Arabidopsis thalian	0.618	0.465	0.298	2.2e-29

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

 Score = 358 (131.1 bits), Expect = 2.0e-32, P = 2.0e-32
 Identities = 87/324 (26%), Positives = 166/324 (51%)

Query:   100 SSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNC 159
             ++++D   K+   E  + +F ++ K    A+    +V L   + K  + + GF  E+   
Sbjct:   202 TTLIDGCCKKGEIEKAKDLFFEMGKLGLVANERTYTV-LINGLFKNGVKKQGF--EMYEK 258

Query:   160 MINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKK 219
             M  DG   +  T + +++ +C  +D  + +      EM++ G    +V Y  +I  L ++
Sbjct:   259 MQEDGVFPNLYTYNCVMNQLC--KDGRTKDAFQVFDEMRERGVSCNIVTYNTLIGGLCRE 316

Query:   220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTY 279
              K+ +A  +++QMKSDGI P+++ Y  +++G        KA  L  +L   GL P + TY
Sbjct:   317 MKLNEANKVVDQMKSDGINPNLITYNTLIDGFCGVGKLGKALSLCRDLKSRGLSPSLVTY 376

Query:   280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKW 339
             N+ ++G C++ +     KM+  MEE G KP  +TY  L+    +   + +  +L   M+ 
Sbjct:   377 NILVSGFCRKGDTSGAAKMVKEMEERGIKPSKVTYTILIDTFARSDNMEKAIQLRLSMEE 436

Query:   340 KGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK 399
              G+V ++ TYS++I G   KG + EA  L +  + K       +++  I G C+ G   +
Sbjct:   437 LGLVPDVHTYSVLIHGFCIKGQMNEASRLFKSMVEKNCEPNEVIYNTMILGYCKEGSSYR 496

Query:   400 ALELLKQMADKDVSPGARVWEALL 423
             AL+LLK+M +K+++P    +  ++
Sbjct:   497 ALKLLKEMEEKELAPNVASYRYMI 520

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 353 (129.3 bits), Expect = 1.2e-31, P = 1.2e-31
 Identities = 76/273 (27%), Positives = 148/273 (54%)

Query:   173 SLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQM 232
             S+++ S+C  +D S D+ L    EM+  G    +V Y+++I  L    K  D   +L +M
Sbjct:   249 SIVIDSLC--KDGSFDDALSLFNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREM 306

Query:   233 KSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV 292
                 I PD+V ++ +++  + +   ++A+EL++E++  G+ PD  TYN  I+G CK+N +
Sbjct:   307 IGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCL 366

Query:   293 EAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIM 352
                 +M   M   G +PD++TY+ L+ + CK + ++    L +E+  KG++ N  TY+ +
Sbjct:   367 HEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTL 426

Query:   353 IDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDV 412
             + G    G +  A  L +E +++G+      +   + GLC  G + KALE+ ++M    +
Sbjct:   427 VLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRM 486

Query:   413 SPGARVWEALL--LSSVSKLDFVNTSFIRLVDQ 443
             + G  ++  ++  + + SK+D   + F  L D+
Sbjct:   487 TLGIGIYNIIIHGMCNASKVDDAWSLFCSLSDK 519

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 343 (125.8 bits), Expect = 8.3e-31, P = 8.3e-31
 Identities = 73/267 (27%), Positives = 142/267 (53%)

Query:   146 RINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG 205
             R NRV  A+ +++ M+  G+  D    + I+ S+C+ + ++  +   F +E+++ G    
Sbjct:   167 RRNRVSDAVSLVDKMVEIGYKPDIVAYNAIIDSLCKTKRVN--DAFDFFKEIERKGIRPN 224

Query:   206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFD 265
             +V YT ++  L    +  DA  +L+ M    I P+++ Y+ +L+  +     ++A+ELF+
Sbjct:   225 VVTYTALVNGLCNSSRWSDAARLLSDMIKKKITPNVITYSALLDAFVKNGKVLEAKELFE 284

Query:   266 ELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR 325
             E++ + + PD+ TY+  INGLC  + ++   +M   M   G   DV++YNTL+   CK +
Sbjct:   285 EMVRMSIDPDIVTYSSLINGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLINGFCKAK 344

Query:   326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFD 385
              +    +L +EM  +G+V N  TY+ +I G    GD+ +A     +    G+      ++
Sbjct:   345 RVEDGMKLFREMSQRGLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDIWTYN 404

Query:   386 ETICGLCQRGLVRKALELLKQMADKDV 412
               + GLC  G + KAL + + M  +++
Sbjct:   405 ILLGGLCDNGELEKALVIFEDMQKREM 431

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2173403 AT5G64320 "AT5G64320" [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 1.6e-30, P = 1.6e-30
 Identities = 102/379 (26%), Positives = 184/379 (48%)

Query:    76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDS 135
             C P  E ++ VI  L +  +  + + +++ +  R  F   +  +  L+       R   +
Sbjct:   283 CVPDAETFNDVILGLCKFDRINEAAKMVNRMLIR-GFAPDDITYGYLMNGLCKIGRVDAA 341

Query:   136 VNLFYKIPKFRINRVGFAIE--ILNCMINDGFCV--DGKTCSLILSSVCEQRDLS----S 187
              +LFY+IPK  I      I   + +  ++D   V  D  T   I+  VC    L      
Sbjct:   342 KDLFYRIPKPEIVIFNTLIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWK 401

Query:   188 DELLGFVQE----MKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVC 243
             + L+G   E    M+  G    +  YT ++    K  K+ +A  +LN+M +DG+KP+ V 
Sbjct:   402 EGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVG 461

Query:   244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACME 303
             +  +++    +    +A E+F E+   G  PDVYT+N  I+GLC+ + ++  + ++  M 
Sbjct:   462 FNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMI 521

Query:   304 ELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDII 363
               G   + +TYNTL+ A  +  E+   R+LV EM ++G  L+  TY+ +I GL   G++ 
Sbjct:   522 SEGVVANTVTYNTLINAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLIKGLCRAGEVD 581

Query:   364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL 423
             +A  L E+ L  G    +   +  I GLC+ G+V +A+E  K+M  +  +P    + +L+
Sbjct:   582 KARSLFEKMLRDGHAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLI 641

Query:   424 --LSSVSKLDFVNTSFIRL 440
               L    +++   T F +L
Sbjct:   642 NGLCRAGRIEDGLTMFRKL 660

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2083976 MEE40 "maternal effect embryo arrest 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 345 (126.5 bits), Expect = 1.7e-30, P = 1.7e-30
 Identities = 82/304 (26%), Positives = 150/304 (49%)

Query:   126 YADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDL 185
             + D + F   VN   K        V  AIEI++ M+ +G+  D  T + ++S +C+  ++
Sbjct:   292 FPDQYTFNTLVNGLCKA-----GHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEV 346

Query:   186 SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT 245
                E +  + +M         V Y  +I +L K+ +V +A  +   + S GI PD+  + 
Sbjct:   347 K--EAVEVLDQMITRDCSPNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFN 404

Query:   246 MVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL 305
              ++ G+ +  ++  A ELF+E+   G  PD +TYN+ I+ LC +  ++  + M+  ME  
Sbjct:   405 SLIQGLCLTRNHRVAMELFEEMRSKGCEPDEFTYNMLIDSLCSKGKLDEALNMLKQMELS 464

Query:   306 GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA 365
             G    VITYNTL+   CK  +     E+  EM+  G+  N  TY+ +IDGL     + +A
Sbjct:   465 GCARSVITYNTLIDGFCKANKTREAEEIFDEMEVHGVSRNSVTYNTLIDGLCKSRRVEDA 524

Query:   366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS 425
               L+++ + +G       ++  +   C+ G ++KA ++++ M      P   V    L+S
Sbjct:   525 AQLMDQMIMEGQKPDKYTYNSLLTHFCRGGDIKKAADIVQAMTSNGCEPDI-VTYGTLIS 583

Query:   426 SVSK 429
              + K
Sbjct:   584 GLCK 587

GO:0005739 "mitochondrion" evidence=ISM

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

GO:0009507 "chloroplast" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016226 "iron-sulfur cluster assembly" evidence=RCA

GO:0048481 "ovule development" evidence=RCA

TAIR|locus:2203916 AT1G62590 [Arabidopsis thaliana (taxid:3702)]

 Score = 339 (124.4 bits), Expect = 4.6e-30, P = 4.6e-30
 Identities = 76/281 (27%), Positives = 145/281 (51%)

Query:   153 AIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNV 212
             A+ +LN M       D    + I+ S+C+ R +  D+ L   +EM+  G    +V Y+++
Sbjct:   244 ALNLLNKMEAAKIEADVVIFNTIIDSLCKYRHV--DDALNLFKEMETKGIRPNVVTYSSL 301

Query:   213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL 272
             I  L    +  DA  +L+ M    I P++V +  +++  + +  +V+AE+L+D+++   +
Sbjct:   302 ISCLCSYGRWSDASQLLSDMIEKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSI 361

Query:   273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRE 332
              PD++TYN  +NG C  + ++   +M   M      PDV+TYNTL++  CK + +    E
Sbjct:   362 DPDIFTYNSLVNGFCMHDRLDKAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTE 421

Query:   333 LVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC 392
             L +EM  +G+V +  TY+ +I GL   GD   A  + ++ ++ G+      +   + GLC
Sbjct:   422 LFREMSHRGLVGDTVTYTTLIQGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLC 481

Query:   393 QRGLVRKALELLKQMADKDVSPGARVWEALL--LSSVSKLD 431
               G + KALE+   M   ++     ++  ++  +    K+D
Sbjct:   482 NNGKLEKALEVFDYMQKSEIKLDIYIYTTMIEGMCKAGKVD 522

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 336 (123.3 bits), Expect = 7.8e-30, P = 7.8e-30
 Identities = 76/281 (27%), Positives = 149/281 (53%)

Query:   153 AIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNV 212
             A+E+L+ M+      D  T ++++ + C  RD      +  + EM+  G    +V Y  +
Sbjct:   223 AMEVLDRMLQRDCYPDVITYTILIEATC--RDSGVGHAMKLLDEMRDRGCTPDVVTYNVL 280

Query:   213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL 272
             +  + K+ ++ +A+  LN M S G +P+++ + ++L  +     ++ AE+L  ++L  G 
Sbjct:   281 VNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGF 340

Query:   273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRE 332
              P V T+N+ IN LC++  +   I ++  M + G +P+ ++YN LL   CK ++++R  E
Sbjct:   341 SPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIE 400

Query:   333 LVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC 392
              ++ M  +G   ++ TY+ M+  L   G + +A  +L +  +KG       ++  I GL 
Sbjct:   401 YLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLA 460

Query:   393 QRGLVRKALELLKQMADKDVSPGARVWEALL--LSSVSKLD 431
             + G   KA++LL +M  KD+ P    + +L+  LS   K+D
Sbjct:   461 KAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVD 501

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2174008 AT5G61990 "AT5G61990" [Arabidopsis thaliana (taxid:3702)]

 Score = 340 (124.7 bits), Expect = 1.1e-29, P = 1.1e-29
 Identities = 83/258 (32%), Positives = 128/258 (49%)

Query:   146 RINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG 205
             +  R+  A   L  M+ +G   +  T    +S   E  + +S +   +V+EM++ G    
Sbjct:   499 KAKRMDEARSFLVEMVENGLKPNAFTYGAFISGYIEASEFASADK--YVKEMRECGVLPN 556

Query:   206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFD 265
              V  T +I    KK KV +A      M   GI  D   YT+++NG+   +    AEE+F 
Sbjct:   557 KVLCTGLINEYCKKGKVIEACSAYRSMVDQGILGDAKTYTVLMNGLFKNDKVDDAEEIFR 616

Query:   266 ELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR 325
             E+   G+ PDV++Y V ING  K  N++    +   M E G  P+VI YN LL   C+  
Sbjct:   617 EMRGKGIAPDVFSYGVLINGFSKLGNMQKASSIFDEMVEEGLTPNVIIYNMLLGGFCRSG 676

Query:   326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFD 385
             E+ + +EL+ EM  KG+  N  TY  +IDG    GD+ EA  L +E   KGL   S ++ 
Sbjct:   677 EIEKAKELLDEMSVKGLHPNAVTYCTIIDGYCKSGDLAEAFRLFDEMKLKGLVPDSFVYT 736

Query:   386 ETICGLCQRGLVRKALEL 403
               + G C+   V +A+ +
Sbjct:   737 TLVDGCCRLNDVERAITI 754

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 335 (123.0 bits), Expect = 2.0e-29, P = 2.0e-29
 Identities = 94/343 (27%), Positives = 158/343 (46%)

Query:    86 VIKTLAENSQFC-DISSVLDHIEKRENFETPEFIFIDL-IKTYADAHRFQDSVNLFYKI- 142
             V K+L E    C   SSV D + K  ++     I   L I   A AH F   V  +  + 
Sbjct:   119 VFKSLQETYDLCYSTSSVFDLVVK--SYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVL 176

Query:   143 -PKFRINR-VGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL 200
                 R  R + FA  +   M+      +  T ++++   C   ++  D  L    +M+  
Sbjct:   177 DATIRSKRNISFAENVFKEMLESQVSPNVFTYNILIRGFCFAGNI--DVALTLFDKMETK 234

Query:   201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKA 260
             G    +V Y  +I    K  K+ D   +L  M   G++P+++ Y +V+NG+  +    + 
Sbjct:   235 GCLPNVVTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKEV 294

Query:   261 EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA 320
               +  E+   G   D  TYN  I G CK+ N    + M A M   G  P VITY +L+ +
Sbjct:   295 SFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHS 354

Query:   321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ 380
             +CK   +NR  E + +M+ +G+  N +TY+ ++DG + KG + EA  +L E  + G    
Sbjct:   355 MCKAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPS 414

Query:   381 SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL 423
                ++  I G C  G +  A+ +L+ M +K +SP    +  +L
Sbjct:   415 VVTYNALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVL 457

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 332 (121.9 bits), Expect = 2.2e-29, P = 2.2e-29
 Identities = 85/285 (29%), Positives = 144/285 (50%)

Query:   132 FQDSVNLFYKIPK--FRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDE 189
             +   V L  K+ K  F +  +  A+ ++  +   G   D    + +++  C+   +  D+
Sbjct:   120 YNPDVILCTKLIKGFFTLRNIPKAVRVMEILEKFGQ-PDVFAYNALINGFCKMNRI--DD 176

Query:   190 LLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN 249
                 +  M+   F    V Y  +I SL  + K+  AL +LNQ+ SD  +P ++ YT+++ 
Sbjct:   177 ATRVLDRMRSKDFSPDTVTYNIMIGSLCSRGKLDLALKVLNQLLSDNCQPTVITYTILIE 236

Query:   250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP 309
               +++    +A +L DE+L  GL PD++TYN  I G+CK+  V+   +M+  +E  G +P
Sbjct:   237 ATMLEGGVDEALKLMDEMLSRGLKPDMFTYNTIIRGMCKEGMVDRAFEMVRNLELKGCEP 296

Query:   310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL 369
             DVI+YN LL+AL    +     +L+ +M  +    N+ TYSI+I  L   G I EA  LL
Sbjct:   297 DVISYNILLRALLNQGKWEEGEKLMTKMFSEKCDPNVVTYSILITTLCRDGKIEEAMNLL 356

Query:   370 EEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSP 414
             +    KGL   +  +D  I   C+ G +  A+E L+ M      P
Sbjct:   357 KLMKEKGLTPDAYSYDPLIAAFCREGRLDVAIEFLETMISDGCLP 401

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=IDA

GO:0010103 "stomatal complex morphogenesis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8L6Y7	PP193_ARATH	No assigned EC number	0.4043	0.8807	0.8807	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	453
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-14
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-06
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-06
pfam12854	34	pfam12854, PPR_1, PPR repeat	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	0.001
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.003
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score = 67.4 bits (166), Expect = 1e-14
 Identities = 24/50 (48%), Positives = 33/50 (66%)

Query: 274 PDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK 323
           PDV TYN  I+G CK+  VE  +K+   M++ G KP+V TY+ L+  LCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 65.5 bits (161), Expect = 5e-14
 Identities = 25/49 (51%), Positives = 33/49 (67%)

Query: 309 PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA 357
           PDV+TYNTL+   CK  ++    +L  EMK +GI  N+ TYSI+IDGL 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 73.0 bits (179), Expect = 1e-13
 Identities = 54/211 (25%), Positives = 91/211 (43%), Gaps = 13/211 (6%)

Query: 209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELL 268
           YT  + S  +K     AL I + MK  G+KPD V ++ +++      D  KA E+  +  
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 269 VLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELN 328
             G+     +Y+  +       N +  +++   ++ +  +P V T N L+ ALC+  +L 
Sbjct: 677 KQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLP 736

Query: 329 RLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETI 388
           +  E++ EMK  G+  N  TYSI++     K D      LL +A   G+     M    I
Sbjct: 737 KALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCR-CI 795

Query: 389 CGLCQRGLVRKALELLKQMADKDVSPGARVW 419
            GLC             +  +K  + G  V 
Sbjct: 796 TGLC------------LRRFEKACALGEPVV 814

Length = 1060

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

 Score = 59.3 bits (145), Expect = 1e-11
 Identities = 20/50 (40%), Positives = 34/50 (68%)

Query: 239 PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK 288
           PD+V Y  +++G   +    +A +LF+E+   G+ P+VYTY++ I+GLCK
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 66.4 bits (162), Expect = 1e-11
 Identities = 52/256 (20%), Positives = 113/256 (44%), Gaps = 6/256 (2%)

Query: 171 TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL-GIL 229
           T ++++S     +D   D  L  ++ +++ G       YT +I +  K  KV DA+  + 
Sbjct: 439 TFNMLMSVCASSQD--IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV-DAMFEVF 495

Query: 230 NQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ 289
           ++M + G++ ++  +  +++G        KA   +  +    + PD   +N  I+   + 
Sbjct: 496 HEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQS 555

Query: 290 NNVEAGIKMIACM--EELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQ 347
             V+    ++A M  E     PD IT   L++A     +++R +E+ + +    I    +
Sbjct: 556 GAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPE 615

Query: 348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM 407
            Y+I ++  + KGD   A  + ++   KG+      F   +      G + KA E+L+  
Sbjct: 616 VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA 675

Query: 408 ADKDVSPGARVWEALL 423
             + +  G   + +L+
Sbjct: 676 RKQGIKLGTVSYSSLM 691

Length = 1060

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

 Score = 58.7 bits (142), Expect = 4e-09
 Identities = 34/138 (24%), Positives = 68/138 (49%)

Query: 270 LGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNR 329
           L   P + T+N+ ++      +++  ++++  ++E G K D   Y TL+    K  +++ 
Sbjct: 431 LIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA 490

Query: 330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETIC 389
           + E+  EM   G+  N+ T+  +IDG A  G + +A G      +K +     +F+  I 
Sbjct: 491 MFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALIS 550

Query: 390 GLCQRGLVRKALELLKQM 407
              Q G V +A ++L +M
Sbjct: 551 ACGQSGAVDRAFDVLAEM 568

Length = 1060

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

 Score = 50.1 bits (121), Expect = 1e-08
 Identities = 17/42 (40%), Positives = 28/42 (66%)

Query: 209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNG 250
           Y  +I    KK KV +AL + N+MK  GIKP++  Y+++++G
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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 = 55.7 bits (134), Expect = 4e-08
 Identities = 48/212 (22%), Positives = 101/212 (47%), Gaps = 6/212 (2%)

Query: 225 ALGILNQMKSDG--IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL--VPDVYTYN 280
           A  +L +MK++   I PD +    ++          +A+E++  +    +   P+VYT  
Sbjct: 561 AFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIA 620

Query: 281 VYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK 340
           V  N   ++ + +  + +   M++ G KPD + ++ L+       +L++  E++++ + +
Sbjct: 621 V--NSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

Query: 341 GIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKA 400
           GI L   +YS ++   ++  +  +A  L E+  +  L    S  +  I  LC+   + KA
Sbjct: 679 GIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKA 738

Query: 401 LELLKQMADKDVSPGARVWEALLLSSVSKLDF 432
           LE+L +M    + P    +  LL++S  K D 
Sbjct: 739 LEVLSEMKRLGLCPNTITYSILLVASERKDDA 770

Length = 1060

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

 Score = 43.9 bits (105), Expect = 2e-06
 Identities = 16/33 (48%), Positives = 23/33 (69%)

Query: 306 GSKPDVITYNTLLQALCKVRELNRLRELVKEMK 338
           G KPDV+TYNTL+  LC+   ++   EL+ EM+
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 43.5 bits (104), Expect = 2e-06
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 271 GLVPDVYTYNVYINGLCKQNNVEAGIKMIACME 303
           GL PDV TYN  I+GLC+   V+  ++++  ME
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 47.9 bits (114), Expect = 9e-06
 Identities = 42/197 (21%), Positives = 78/197 (39%), Gaps = 32/197 (16%)

Query: 206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN-----GVIVQEDYVKA 260
           ++ +T++I  L    + F+AL    QM    +KP+ V     L+     G ++    + A
Sbjct: 455 VISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHA 513

Query: 261 EELFDELLVLGLVP-------------------------DVYTYNVYINGLCKQNNVEAG 295
             L   +   G +P                         DV ++N+ + G          
Sbjct: 514 HVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMA 573

Query: 296 IKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSIMID 354
           +++   M E G  PD +T+ +LL A  +   + +  E    M+ K  I  NL+ Y+ ++D
Sbjct: 574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVD 633

Query: 355 GLASKGDIIEACGLLEE 371
            L   G + EA   + +
Sbjct: 634 LLGRAGKLTEAYNFINK 650

Length = 857

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

 Score = 38.9 bits (92), Expect = 1e-04
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 340 KGIVLNLQTYSIMIDGLASKGDIIEACGLLEE 371
           KG+  ++ TY+ +IDGL   G + EA  LL+E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 42.5 bits (100), Expect = 4e-04
 Identities = 43/170 (25%), Positives = 75/170 (44%), Gaps = 8/170 (4%)

Query: 247 VLNGVIVQEDYVKAEELFDELLVLGLVP--DVYTYNVYINGLCKQNNVEAGIKMIACMEE 304
           V+N +I    YVK  ++    LV   +P  D  ++N  I+G  +      G+++   M E
Sbjct: 224 VVNALITM--YVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE 281

Query: 305 LGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE 364
           L   PD++T  +++ A   + +    RE+   +   G  +++   + +I    S G   E
Sbjct: 282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

Query: 365 ACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSP 414
           A  +      K   + ++M    I G  + GL  KALE    M   +VSP
Sbjct: 342 AEKVFSRMETKDAVSWTAM----ISGYEKNGLPDKALETYALMEQDNVSP 387

Length = 857

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

 Score = 37.4 bits (88), Expect = 4e-04
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI 241
           Y  +I  L K  +V +AL +  +MK  GI+PD+
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 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 = 41.4 bits (97), Expect = 0.001
 Identities = 23/74 (31%), Positives = 43/74 (58%), Gaps = 2/74 (2%)

Query: 171 TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILN 230
           T + +++++CE   L   + L  + EMK+LG C   + Y+ ++ +  +K+     L +L+
Sbjct: 721 TMNALITALCEGNQL--PKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Query: 231 QMKSDGIKPDIVCY 244
           Q K DGIKP++V  
Sbjct: 779 QAKEDGIKPNLVMC 792

Length = 1060

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

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 38/160 (23%), Positives = 72/160 (45%), Gaps = 6/160 (3%)

Query: 257 YVKAEELFDELLVLGLVP--DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITY 314
           +V+  EL     V G +P  D++++NV + G  K    +  + +   M   G +PDV T+
Sbjct: 131 FVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTF 190

Query: 315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN 374
             +L+    + +L R RE+   +   G  L++   + +I      GD++ A  + +    
Sbjct: 191 PCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR 250

Query: 375 KGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSP 414
           +   + ++M    I G  + G   + LEL   M +  V P
Sbjct: 251 RDCISWNAM----ISGYFENGECLEGLELFFTMRELSVDP 286

Length = 857

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 16/34 (47%), Positives = 21/34 (61%)

Query: 312 ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN 345
           +TYNTL+  LCK   +    EL KEMK +GI  +
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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 348 TYSIMIDGLASKGDIIEACGLLEEALNKGL 377
           TY+ +I G    G + EA  L +E   KG+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.1 bits (82), Expect = 0.002
 Identities = 15/31 (48%), Positives = 20/31 (64%)

Query: 312 ITYNTLLQALCKVRELNRLRELVKEMKWKGI 342
           +TYN+L+   CK  +L    EL KEMK KG+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.5 bits (83), Expect = 0.003
 Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 8/53 (15%)

Query: 345 NLQTYSIMIDGLASKGDIIEACGLLEEALNKGL----CTQSSMFDETICGLCQ 393
           ++ TY+ +IDG   KG + EA  L  E   +G+     T S + D    GLC+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID----GLCK 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 277 YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV 311
            TYN  I+GLCK   VE  +++   M+E G +PDV
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	453
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.83
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.79
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.74
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.74
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.7
PRK14574	822	hmsH outer membrane protein; Provisional	99.68
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.66
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.66
PRK14574	822	hmsH outer membrane protein; Provisional	99.63
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.57
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.56
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.56
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.53
KOG2003	840	consensus TPR repeat-containing protein [General f	99.52
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.51
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.48
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.45
KOG2076	895	consensus RNA polymerase III transcription factor	99.45
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.45
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.44
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
KOG1126	638	consensus DNA-binding cell division cycle control	99.43
PRK12370	553	invasion protein regulator; Provisional	99.4
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.4
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.38
PRK12370	553	invasion protein regulator; Provisional	99.38
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.37
PF13041	50	PPR_2: PPR repeat family	99.37
PF13041	50	PPR_2: PPR repeat family	99.36
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.32
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.31
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.3
KOG1129	478	consensus TPR repeat-containing protein [General f	99.3
KOG2003	840	consensus TPR repeat-containing protein [General f	99.29
KOG2076	895	consensus RNA polymerase III transcription factor	99.28
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.27
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.24
KOG1129	478	consensus TPR repeat-containing protein [General f	99.23
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.2
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.17
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.17
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.13
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.09
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.09
PRK11189	296	lipoprotein NlpI; Provisional	99.08
PRK11189	296	lipoprotein NlpI; Provisional	99.08
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.01
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.0
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.98
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.97
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.96
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.91
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.9
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.9
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.87
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.86
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.84
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.83
PF12854	34	PPR_1: PPR repeat	98.79
PF12854	34	PPR_1: PPR repeat	98.75
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.74
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.71
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.69
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.68
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.68
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.66
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.66
PLN02789	320	farnesyltranstransferase	98.65
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.64
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.64
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.64
KOG1125	579	consensus TPR repeat-containing protein [General f	98.63
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.61
PRK04841	903	transcriptional regulator MalT; Provisional	98.6
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.57
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.57
PLN02789	320	farnesyltranstransferase	98.56
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.56
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.55
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.53
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.51
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.48
PRK15359	144	type III secretion system chaperone protein SscB;	98.45
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.44
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.44
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.43
KOG1125	579	consensus TPR repeat-containing protein [General f	98.42
PRK04841	903	transcriptional regulator MalT; Provisional	98.42
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.41
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.39
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.38
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.36
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.36
PRK15359	144	type III secretion system chaperone protein SscB;	98.32
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.31
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.3
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.28
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.28
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.28
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.28
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.24
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.24
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.24
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.22
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.21
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.21
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.19
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.17
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.15
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.15
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.14
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.11
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.11
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.09
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.05
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.02
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.0
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.98
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.97
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.97
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.97
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.94
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.94
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.94
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.9
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.89
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.84
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.83
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.83
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.77
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.75
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.75
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.74
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.74
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.7
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.7
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.68
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.66
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.65
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.62
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.6
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.57
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.54
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.54
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.53
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.51
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.5
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.5
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.48
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.48
KOG0553	304	consensus TPR repeat-containing protein [General f	97.47
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.46
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.42
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.3
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.29
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.28
PF12688	120	TPR_5: Tetratrico peptide repeat	97.27
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.21
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.17
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.17
PF12688	120	TPR_5: Tetratrico peptide repeat	97.15
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.15
KOG0553	304	consensus TPR repeat-containing protein [General f	97.14
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.09
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.06
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.05
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.03
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.97
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.96
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.93
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.93
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.88
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.86
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.83
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.71
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.68
PRK10803	263	tol-pal system protein YbgF; Provisional	96.67
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.67
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.67
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.66
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.62
PRK10803	263	tol-pal system protein YbgF; Provisional	96.62
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.59
PRK15331	165	chaperone protein SicA; Provisional	96.59
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.52
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.51
PF13371	73	TPR_9: Tetratricopeptide repeat	96.4
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.29
PF13371	73	TPR_9: Tetratricopeptide repeat	96.22
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.2
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.18
KOG3941	406	consensus Intermediate in Toll signal transduction	96.15
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.09
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.09
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.02
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.98
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.94
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.91
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.89
PRK15331	165	chaperone protein SicA; Provisional	95.89
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.87
KOG3941	406	consensus Intermediate in Toll signal transduction	95.86
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.77
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.74
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	95.64
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.61
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.6
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.59
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.56
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.53
COG4700	251	Uncharacterized protein conserved in bacteria cont	95.51
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.51
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.47
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	95.47
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.26
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	95.1
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.05
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.98
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.81
KOG1585	308	consensus Protein required for fusion of vesicles	94.77
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.76
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.63
PF13512	142	TPR_18: Tetratricopeptide repeat	94.5
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.48
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.34
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.29
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.18
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.18
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.16
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.12
PF13428	44	TPR_14: Tetratricopeptide repeat	93.93
PF13428	44	TPR_14: Tetratricopeptide repeat	93.89
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.71
KOG4555	175	consensus TPR repeat-containing protein [Function	93.7
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.7
PF13512	142	TPR_18: Tetratricopeptide repeat	93.64
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.63
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.05
PRK11906	458	transcriptional regulator; Provisional	92.96
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	92.4
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.39
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	92.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.15
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	91.91
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.79
PF13929	292	mRNA_stabil: mRNA stabilisation	91.65
KOG2297	412	consensus Predicted translation factor, contains W	91.63
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.52
COG3947	361	Response regulator containing CheY-like receiver a	91.51
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	91.37
KOG4555	175	consensus TPR repeat-containing protein [Function	91.34
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.22
PF07575	566	Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR0	90.93
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.89
KOG1941	518	consensus Acetylcholine receptor-associated protei	90.85
PRK09687	280	putative lyase; Provisional	90.82
KOG4570	418	consensus Uncharacterized conserved protein [Funct	90.69
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	90.62
COG0457	291	NrfG FOG: TPR repeat [General function prediction	90.11
KOG1585	308	consensus Protein required for fusion of vesicles	90.11
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	89.85
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	89.68
PRK11906	458	transcriptional regulator; Provisional	89.57
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.52
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.31
PF13431	34	TPR_17: Tetratricopeptide repeat	89.25
COG3947	361	Response regulator containing CheY-like receiver a	88.35
COG3898	531	Uncharacterized membrane-bound protein [Function u	87.65
KOG1550	552	consensus Extracellular protein SEL-1 and related	87.48
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.44
COG1747	711	Uncharacterized N-terminal domain of the transcrip	87.3
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	87.26
PF13431	34	TPR_17: Tetratricopeptide repeat	87.13
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.02
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	86.86
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.25
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.12
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	86.05
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	85.62
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.46
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	85.44
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.36
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.36
KOG1941	518	consensus Acetylcholine receptor-associated protei	85.3
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	84.89
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	84.81
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	84.45
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.04
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	83.91
PHA02875	413	ankyrin repeat protein; Provisional	83.3
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	83.22
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	83.1
COG1747	711	Uncharacterized N-terminal domain of the transcrip	82.91
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	82.38
KOG1258	577	consensus mRNA processing protein [RNA processing	82.08
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	81.18
PF13929	292	mRNA_stabil: mRNA stabilisation	80.56

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.7e-59  Score=472.35  Aligned_cols=386  Identities=19%  Similarity=0.185  Sum_probs=345.4

Q ss_pred             cchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHh
Q 039177           61 PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFY  140 (453)
Q Consensus        61 ~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  140 (453)
                      .+.+..++..|...|+.||..+|+.+|.+|++.|+++.|.++|+.|.+. |+.||..+|+.||.+|++.|++++|.++|+
T Consensus       453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~-Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~  531 (1060)
T PLN03218        453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAYG  531 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            3445667788888999999999999999999999999999999999987 889999999999999999999999999999


Q ss_pred             hcccCC-----------------CCcHHHHHHHHHHHHH--CCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Q 039177          141 KIPKFR-----------------INRVGFAIEILNCMIN--DGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG  201 (453)
Q Consensus       141 ~~~~~~-----------------~~~~~~a~~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g  201 (453)
                      +|.+.+                 .|++++|.++|.+|..  .|+.||..+|+.+|.+|++.|++  ++|.++|+.|.+.|
T Consensus       532 ~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~l--deA~elf~~M~e~g  609 (1060)
T PLN03218        532 IMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV--DRAKEVYQMIHEYN  609 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHcC
Confidence            997654                 7889999999999976  67899999999999999999998  99999999999999


Q ss_pred             CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          202 FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV  281 (453)
Q Consensus       202 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~  281 (453)
                      +.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..+|++
T Consensus       610 i~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tyns  689 (1060)
T PLN03218        610 IKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSS  689 (1060)
T ss_pred             CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      +|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|+
T Consensus       690 LI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~  769 (1060)
T PLN03218        690 LMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDD  769 (1060)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----C-------------------CCHHHHHHHHHHHhhCCCCCCHHH
Q 039177          362 IIEACGLLEEALNKGLCTQSSMFDETICGLCQ----R-------------------GLVRKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       362 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~-------------------g~~~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      +++|.++|++|.+.|+.||..+|+.++..|.+    +                   +..++|..+|++|.+.|+.||..|
T Consensus       770 le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T  849 (1060)
T PLN03218        770 ADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEV  849 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHH
Confidence            99999999999999999999999999865432    1                   234679999999999999999999


Q ss_pred             HHHHHhchhcchhhHHHHHHHHHHhhhcCCCCC
Q 039177          419 WEALLLSSVSKLDFVNTSFIRLVDQILNTPCKM  451 (453)
Q Consensus       419 ~~~ll~a~~~~~~~~~~~~~~~~~~~~~~p~~~  451 (453)
                      |+.+|.+++...  ....+..|.+.+...|+.+
T Consensus       850 ~~~vL~cl~~~~--~~~~~~~m~~~m~~~~~~~  880 (1060)
T PLN03218        850 LSQVLGCLQLPH--DATLRNRLIENLGISADSQ  880 (1060)
T ss_pred             HHHHHHHhcccc--cHHHHHHHHHHhccCCCCc
Confidence            999994432222  2345678888887777654

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.2e-59  Score=470.32  Aligned_cols=404  Identities=13%  Similarity=0.210  Sum_probs=368.7

Q ss_pred             cCCCCCCCcchhhhhhchHHHHHHhhhhccCCCCCCCCCCC-CCcchHH----------------HHHHHhhhcCCCCCh
Q 039177           18 RKWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIP-KQPHILS----------------SLLHSFSIYNCEPPP   80 (453)
Q Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~----------------~ll~~~~~~~~~p~~   80 (453)
                      +..+..++...+...+..+.+.+....++..+..|...+.. .+.....                .+++.|.    .||.
T Consensus       362 ~~~~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~----~pd~  437 (1060)
T PLN03218        362 GGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR----NPTL  437 (1060)
T ss_pred             cccCCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC----CCCH
Confidence            34444555555666666666667777777776666555432 2222222                2333332    3999


Q ss_pred             hhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--------------
Q 039177           81 EAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--------------  146 (453)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------------  146 (453)
                      .+|+.+|.+|++.|+++.|.++|+.|.+. |+.||..+|++||.+|+++|++++|.++|++|.+.+              
T Consensus       438 ~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~-Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~g  516 (1060)
T PLN03218        438 STFNMLMSVCASSQDIDGALRVLRLVQEA-GLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDG  516 (1060)
T ss_pred             HHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999999999999999999998 899999999999999999999999999999998754              


Q ss_pred             ---CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHH--cCCCcChhhHHHHHHHHHhcCC
Q 039177          147 ---INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKK--LGFCFGMVDYTNVIRSLVKKEK  221 (453)
Q Consensus       147 ---~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~  221 (453)
                         .|++++|+++|+.|...|+.||..+|+.+|.+|++.|++  ++|.++|++|.+  .|+.||..+|++||.+|++.|+
T Consensus       517 y~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~--deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        517 CARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAV--DRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence               799999999999999999999999999999999999999  999999999986  5789999999999999999999


Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          222 VFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIAC  301 (453)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~  301 (453)
                      +++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|+.
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 039177          302 MEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS  381 (453)
Q Consensus       302 m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  381 (453)
                      |.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||.
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhc
Q 039177          382 SMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVS  428 (453)
Q Consensus       382 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~  428 (453)
                      .+|+.++.+|++.|++++|.++|++|.+.|+.||..+|++++..|.+
T Consensus       755 ~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~  801 (1060)
T PLN03218        755 ITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR  801 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999976643

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

Probab=100.00  E-value=5.5e-56  Score=443.91  Aligned_cols=361  Identities=16%  Similarity=0.210  Sum_probs=262.3

Q ss_pred             CcchHHHHHHHhhhc-CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHH
Q 039177           60 QPHILSSLLHSFSIY-NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNL  138 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  138 (453)
                      ++..+..+|..|... +..||..+|+.++.+|++.++++.+.+++..|.+. |+.||..+|+.|+.+|+++|++++|.++
T Consensus       102 ~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~l  180 (697)
T PLN03081        102 RHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESS-GFEPDQYMMNRVLLMHVKCGMLIDARRL  180 (697)
T ss_pred             CHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-CCCcchHHHHHHHHHHhcCCCHHHHHHH
Confidence            344555667777665 47789999999999999999999999999988887 8888999999999999999999999999


Q ss_pred             HhhcccCC-------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC
Q 039177          139 FYKIPKFR-------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG  205 (453)
Q Consensus       139 ~~~~~~~~-------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~  205 (453)
                      |++|++.+             .|++++|+++|++|.+.|+.||..+|+.++.+|+..+..  +.+.+++..+.+.|+.+|
T Consensus       181 f~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~--~~~~~l~~~~~~~g~~~d  258 (697)
T PLN03081        181 FDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA--RAGQQLHCCVLKTGVVGD  258 (697)
T ss_pred             HhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcH--HHHHHHHHHHHHhCCCcc
Confidence            99988766             788899999999998888888888887777777777776  677777777777777777


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      ..+|++||++|+++|++++|.++|++|.+    +|.++|+++|.+|++.|+.++|.++|++|.+.|+.||..||++++.+
T Consensus       259 ~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a  334 (697)
T PLN03081        259 TFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI  334 (697)
T ss_pred             ceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            77777777777777777777777766653    36666777777777777777777777777666666676777777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      |++.|++++|.+++..|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+    ||..+|++||.+|++.|+.++|
T Consensus       335 ~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~~y~~~G~~~~A  410 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIAGYGNHGRGTKA  410 (697)
T ss_pred             HHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHcCCHHHH
Confidence            766666666666666666666666666666666666666666666666666643    3566666666666666666666


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-CCCCCCHHHHHHHHhchhcchh
Q 039177          366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD-KDVSPGARVWEALLLSSVSKLD  431 (453)
Q Consensus       366 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~a~~~~~~  431 (453)
                      .++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|++++.++++.+.
T Consensus       411 ~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~  477 (697)
T PLN03081        411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL  477 (697)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCC
Confidence            66666666666666666666666666666666666666666654 4666666666666666544443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-55  Score=450.20  Aligned_cols=394  Identities=15%  Similarity=0.168  Sum_probs=288.6

Q ss_pred             CCCCCcchhhhhhchHHHHHHhhhhccCCCCCCCCC------------CCCCcchHHHHHHHhhhcCCCCChhhHHHHHH
Q 039177           21 PLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQ------------IPKQPHILSSLLHSFSIYNCEPPPEAYHFVIK   88 (453)
Q Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~ll~~~~~~~~~p~~~~~~~ll~   88 (453)
                      -..++...+++++..+...+....+...+..|....            ......-+..++..|...|+.||..+|+.++.
T Consensus       217 g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~  296 (857)
T PLN03077        217 GFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS  296 (857)
T ss_pred             CCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            334455555555555555555555554444443211            11223345567888999999999999999999


Q ss_pred             HHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-------------CCcHHHHHH
Q 039177           89 TLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-------------INRVGFAIE  155 (453)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~a~~  155 (453)
                      +|++.|+++.|.+++..+.+. |+.||..+|++||.+|+++|++++|.++|++|...+             .|++++|++
T Consensus       297 a~~~~g~~~~a~~l~~~~~~~-g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~  375 (857)
T PLN03077        297 ACELLGDERLGREMHGYVVKT-GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALE  375 (857)
T ss_pred             HHHhcCChHHHHHHHHHHHHh-CCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHH
Confidence            999999999999999999998 899999999999999999999999999999998876             799999999


Q ss_pred             HHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039177          156 ILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD  235 (453)
Q Consensus       156 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  235 (453)
                      +|++|...|+.||..||+.++.+|++.|++  +.+.++++.+.+.|+.++..+||+||++|+++|++++|.++|++|.+ 
T Consensus       376 lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~--~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-  452 (857)
T PLN03077        376 TYALMEQDNVSPDEITIASVLSACACLGDL--DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE-  452 (857)
T ss_pred             HHHHHHHhCCCCCceeHHHHHHHHhccchH--HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC-
Confidence            999999999999999999999999999999  99999999999999999999999999999999999999999999975 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 039177          236 GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYN  315 (453)
Q Consensus       236 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  315 (453)
                         +|..+|+++|.+|++.|+.++|..+|++|.. ++.||..||+.++.+|++.|.++.+.+++..+.+.|+.+|..+++
T Consensus       453 ---~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~n  528 (857)
T PLN03077        453 ---KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPN  528 (857)
T ss_pred             ---CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceech
Confidence               4778888888888888888888888888875 477888888777777777777777777777776666655555555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          316 TLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       316 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      .||.+|+++|++++|.++|+.+     .||..+|++||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|
T Consensus       529 aLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g  603 (857)
T PLN03077        529 ALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSG  603 (857)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcC
Confidence            5555554444444444444443     23444444444444444444444444444444444444444444444444444


Q ss_pred             CHHHHHHHHHHHh-hCCCCCCHHHHHHHHhchh
Q 039177          396 LVRKALELLKQMA-DKDVSPGARVWEALLLSSV  427 (453)
Q Consensus       396 ~~~~A~~~~~~m~-~~~~~p~~~~~~~ll~a~~  427 (453)
                      ++++|.++|++|. +.|+.|+..+|++++.++.
T Consensus       604 ~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~  636 (857)
T PLN03077        604 MVTQGLEYFHSMEEKYSITPNLKHYACVVDLLG  636 (857)
T ss_pred             hHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Confidence            4444444444444 3444444444444444443

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-55  Score=449.89  Aligned_cols=375  Identities=18%  Similarity=0.189  Sum_probs=326.0

Q ss_pred             hHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhc
Q 039177           63 ILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKI  142 (453)
Q Consensus        63 ~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  142 (453)
                      .+..+++.|...|+.||..+|+.++++|++.+++..+.+++..+.+. |+.++..++++||.+|+++|++++|.++|++|
T Consensus       170 ~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m  248 (857)
T PLN03077        170 EALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRF-GFELDVDVVNALITMYVKCGDVVSARLVFDRM  248 (857)
T ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHc-CCCcccchHhHHHHHHhcCCCHHHHHHHHhcC
Confidence            34566778888899999999999999999999999999999999988 89999999999999999999999999999999


Q ss_pred             ccCC-------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhH
Q 039177          143 PKFR-------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDY  209 (453)
Q Consensus       143 ~~~~-------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  209 (453)
                      +..+             .|++++|+++|.+|...|+.||..||+.++.+|++.|+.  +.+.+++..|.+.|+.||..+|
T Consensus       249 ~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~--~~a~~l~~~~~~~g~~~d~~~~  326 (857)
T PLN03077        249 PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE--RLGREMHGYVVKTGFAVDVSVC  326 (857)
T ss_pred             CCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCCh--HHHHHHHHHHHHhCCccchHHH
Confidence            8876             789999999999999999999999999999999999999  8999999999999999999999


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      |+||.+|+++|++++|.++|++|..    ||..+|+++|.+|++.|++++|+++|++|.+.|+.||..+|+.++.+|++.
T Consensus       327 n~Li~~y~k~g~~~~A~~vf~~m~~----~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~  402 (857)
T PLN03077        327 NSLIQMYLSLGSWGEAEKVFSRMET----KDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL  402 (857)
T ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC----CCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhcc
Confidence            9999999999999999999999863    688899999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          290 NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                      |++++|.++++.|.+.|+.|+..+|+.||.+|++.|++++|.++|++|.+.    |..+|+.+|.+|++.|+.++|..+|
T Consensus       403 g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~----d~vs~~~mi~~~~~~g~~~eA~~lf  478 (857)
T PLN03077        403 GDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK----DVISWTSIIAGLRLNNRCFEALIFF  478 (857)
T ss_pred             chHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC----CeeeHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999999998888888888888888888888888888877653    4555666666665555555555555


Q ss_pred             HHHHHCCC-----------------------------------------------------------------CCChhhH
Q 039177          370 EEALNKGL-----------------------------------------------------------------CTQSSMF  384 (453)
Q Consensus       370 ~~m~~~~~-----------------------------------------------------------------~~~~~~~  384 (453)
                      ++|.. ++                                                                 .+|..+|
T Consensus       479 ~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~  557 (857)
T PLN03077        479 RQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSW  557 (857)
T ss_pred             HHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhH
Confidence            55543 22                                                                 3566678


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhc--chhhHHHHHHHHHHhhhcCCC
Q 039177          385 DETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVS--KLDFVNTSFIRLVDQILNTPC  449 (453)
Q Consensus       385 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~--~~~~~~~~~~~~~~~~~~~p~  449 (453)
                      +.+|.+|++.|+.++|.++|++|.+.|+.||..||+++|.+|..  ..+.+...|..|.++....|.
T Consensus       558 n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~  624 (857)
T PLN03077        558 NILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPN  624 (857)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCc
Confidence            88999999999999999999999999999999999999999974  445556668888777666664

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

Probab=100.00  E-value=3.6e-54  Score=430.85  Aligned_cols=396  Identities=13%  Similarity=0.187  Sum_probs=363.2

Q ss_pred             CCCCCCCcchhhhhhchHHHHHHhhhhccCCCCCCCC-CCCCCcchHHHH----------------HHHhhhcCCCCChh
Q 039177           19 KWPLSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQ-QIPKQPHILSSL----------------LHSFSIYNCEPPPE   81 (453)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l----------------l~~~~~~~~~p~~~   81 (453)
                      ......+..+|++++..+...+....++..+..+... +..++..++..+                +..|...|+.||..
T Consensus        80 ~~~~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~  159 (697)
T PLN03081         80 DTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQY  159 (697)
T ss_pred             cccCCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchH
Confidence            3445667789999999999988888888776655433 234555554444                45566789999999


Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------------
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------------  146 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------------  146 (453)
                      +|+.++.+|++.|+++.|.++|+.|.     .||..+|+++|.+|++.|++++|.++|++|.+.+               
T Consensus       160 ~~n~Li~~y~k~g~~~~A~~lf~~m~-----~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~  234 (697)
T PLN03081        160 MMNRVLLMHVKCGMLIDARRLFDEMP-----ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRAS  234 (697)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHhcCC-----CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHH
Confidence            99999999999999999999999996     4688999999999999999999999999997654               


Q ss_pred             --CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH
Q 039177          147 --INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD  224 (453)
Q Consensus       147 --~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  224 (453)
                        .+..+.+.+++..+.+.|+.||..+|+.|+.+|++.|++  ++|.++|++|..    +|..+||+||.+|++.|++++
T Consensus       235 ~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~--~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~e  308 (697)
T PLN03081        235 AGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDI--EDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEE  308 (697)
T ss_pred             hcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCH--HHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHH
Confidence              578888999999999999999999999999999999999  999999999964    689999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          225 ALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       225 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      |+++|++|.+.|+.||..||++++.+|++.|++++|.+++..|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+
T Consensus       309 A~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~  388 (697)
T PLN03081        309 ALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR  388 (697)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999975


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCChhh
Q 039177          305 LGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN-KGLCTQSSM  383 (453)
Q Consensus       305 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~~~~~~  383 (453)
                          ||..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+ .|+.|+..+
T Consensus       389 ----~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~  464 (697)
T PLN03081        389 ----KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH  464 (697)
T ss_pred             ----CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccc
Confidence                799999999999999999999999999999999999999999999999999999999999999986 599999999


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhh
Q 039177          384 FDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDF  432 (453)
Q Consensus       384 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~  432 (453)
                      |+.++.+|++.|++++|.+++++|   ++.|+..+|++|+.+|..+++.
T Consensus       465 y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~  510 (697)
T PLN03081        465 YACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNL  510 (697)
T ss_pred             hHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCc
Confidence            999999999999999999999887   7899999999999999766544

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

Probab=99.91  E-value=2.9e-20  Score=194.29  Aligned_cols=348  Identities=11%  Similarity=0.073  Sum_probs=196.4

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC------------
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR------------  146 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------  146 (453)
                      +..++..+...+.+.|++++|...++.+.+..  +.+...+..++..|.+.|++++|..+++.+....            
T Consensus       532 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~  609 (899)
T TIGR02917       532 NLRAILALAGLYLRTGNEEEAVAWLEKAAELN--PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGR  609 (899)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34445555555555555555555555555432  3344455555555555555555555555544322            


Q ss_pred             ----CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh
Q 039177          147 ----INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV  222 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  222 (453)
                          .+++++|+..|+.+.... +.+...+..+..++...|+.  ++|..+++.+.+.. +.+..++..++..+...|++
T Consensus       610 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  685 (899)
T TIGR02917       610 AQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNY--AKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRT  685 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCH--HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCH
Confidence                355555555555555432 22344455555555555555  55666555555443 33345555566666666666


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ++|.++++.+.+.... +...+..+...+...|++++|...|+.+...+  |+..++..+..++.+.|+.++|.+.++.+
T Consensus       686 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  762 (899)
T TIGR02917       686 ESAKKIAKSLQKQHPK-AALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAW  762 (899)
T ss_pred             HHHHHHHHHHHhhCcC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6666666666554322 44555555566666666666666666665543  33355555666666666666666666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 039177          303 EELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSS  382 (453)
Q Consensus       303 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  382 (453)
                      .+.. ..+...+..+...|...|++++|..+|+.+.+..+. +...+..+...+...|+ .+|+.+++++.+.. +-+..
T Consensus       763 l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~  838 (899)
T TIGR02917       763 LKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPD-NAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPA  838 (899)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcH
Confidence            5543 224556666666666666666666666666665443 55666666666666666 55666666665542 22344


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchh--cchhhHHHHHHHH
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV--SKLDFVNTSFIRL  440 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~--~~~~~~~~~~~~~  440 (453)
                      ++..+...+...|++++|.++++++.+.+.. +..++..+..++.  ++.+.+.+.+.++
T Consensus       839 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       839 ILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4556666677777777777777777764432 5666666655554  3334444444444

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.91  E-value=5.6e-21  Score=179.83  Aligned_cols=302  Identities=12%  Similarity=0.058  Sum_probs=245.2

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV  167 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p  167 (453)
                      ..+...|+++.|...|..+.+..  +.+..++..+...|...|++++|..+++.+..                  .+..+
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~------------------~~~~~  102 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLS------------------RPDLT  102 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhc------------------CCCCC
Confidence            34567799999999999999873  55677899999999999999999998887432                  22111


Q ss_pred             ---ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH---
Q 039177          168 ---DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI---  241 (453)
Q Consensus       168 ---~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---  241 (453)
                         +..++..+...+...|+.  +.|..+|+++.+.. +.+..+++.++..+.+.|++++|++.++.+.+.+..++.   
T Consensus       103 ~~~~~~~~~~La~~~~~~g~~--~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  179 (389)
T PRK11788        103 REQRLLALQELGQDYLKAGLL--DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI  179 (389)
T ss_pred             HHHHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH
Confidence               124678888899999998  99999999998763 456778999999999999999999999999886544322   


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 039177          242 -VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA  320 (453)
Q Consensus       242 -~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  320 (453)
                       ..+..+...+.+.|++++|...|+++.+.. +.+...+..+...|.+.|++++|.++|+++.+.+......+++.++.+
T Consensus       180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  258 (389)
T PRK11788        180 AHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMEC  258 (389)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHH
Confidence             245567778889999999999999998754 234667778889999999999999999999875422224578889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh---CCCH
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ---RGLV  397 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~---~g~~  397 (453)
                      |.+.|++++|...++.+.+..  |+...+..++..+.+.|++++|..+++++.+.  .|+...++.++..+..   .|+.
T Consensus       259 ~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~  334 (389)
T PRK11788        259 YQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRA  334 (389)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccc
Confidence            999999999999999998874  45566688999999999999999999998875  5888888888877764   5689


Q ss_pred             HHHHHHHHHHhhCCCCCCHH
Q 039177          398 RKALELLKQMADKDVSPGAR  417 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~  417 (453)
                      ++++.++++|.++++.|+..
T Consensus       335 ~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        335 KESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             hhHHHHHHHHHHHHHhCCCC
Confidence            99999999999888877766

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

Probab=99.91  E-value=5.3e-20  Score=192.32  Aligned_cols=322  Identities=10%  Similarity=0.027  Sum_probs=192.1

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------  146 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------  146 (453)
                      .+.++.++..+...+...|++++|...|+.+.+..  +.+...+..+...+...|++++|...|+++....         
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  538 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE--PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILA  538 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHH
Confidence            34566677777777888888888888887777653  4455666777777777777777777777664432         


Q ss_pred             -------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhc
Q 039177          147 -------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKK  219 (453)
Q Consensus       147 -------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  219 (453)
                             .|+.++|..+++++...+ +.+...+..+...+...|+.  ++|..+++.+.+.. +.+...|..+...|.+.
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  614 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQL--KKALAILNEAADAA-PDSPEAWLMLGRAQLAA  614 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCH--HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHc
Confidence                   466666666666665532 23444555666666666666  66666666665543 34555666666666666


Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 039177          220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMI  299 (453)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~  299 (453)
                      |++++|+..|+.+.+.... +...+..+..++...|++++|..+|+.+.+.. +.+..++..+...+...|++++|.+++
T Consensus       615 ~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       615 GDLNKAVSSFKKLLALQPD-SALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             CCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            6666666666666654322 45556666666666666666666666665533 233555555666666666666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 039177          300 ACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT  379 (453)
Q Consensus       300 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  379 (453)
                      +.+.+.+ ..+...+..+...+.+.|++++|...|..+...+.  +..++..+..++.+.|++++|.+.++++.+.. +.
T Consensus       693 ~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~  768 (899)
T TIGR02917       693 KSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAP--SSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PN  768 (899)
T ss_pred             HHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCC--CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CC
Confidence            6665543 22444555555555566666666666665555432  22444455555555555555555555555443 23


Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          380 QSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       380 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +...+..+...|...|++++|.++|+++.+
T Consensus       769 ~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       769 DAVLRTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             CHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            444455555555555555555555555554

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.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=2.9e-19  Score=168.16  Aligned_cols=296  Identities=13%  Similarity=0.061  Sum_probs=237.2

Q ss_pred             HHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC
Q 039177          123 IKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF  202 (453)
Q Consensus       123 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~  202 (453)
                      ...+...|++++|...|.+                  +...+ +.+..++..+...+...|+.  ++|..+++.+.+.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~------------------al~~~-p~~~~~~~~la~~~~~~g~~--~~A~~~~~~~l~~~~  100 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIE------------------MLKVD-PETVELHLALGNLFRRRGEV--DRAIRIHQNLLSRPD  100 (389)
T ss_pred             HHHHHhcCChHHHHHHHHH------------------HHhcC-cccHHHHHHHHHHHHHcCcH--HHHHHHHHHHhcCCC
Confidence            3345677888888877777                  44431 23456788899999999999  999999999887642


Q ss_pred             CcC---hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh---
Q 039177          203 CFG---MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV---  276 (453)
Q Consensus       203 ~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~---  276 (453)
                      .++   ...+..+...|.+.|++++|+.+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+..   
T Consensus       101 ~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  179 (389)
T PRK11788        101 LTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI  179 (389)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH
Confidence            221   3568899999999999999999999998763 347789999999999999999999999999886533321   


Q ss_pred             -hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          277 -YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       277 -~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                       ..+..+...+.+.|++++|...|+++.+.. ..+...+..+...|.+.|++++|.++++++.+.+......+++.++.+
T Consensus       180 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~  258 (389)
T PRK11788        180 AHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMEC  258 (389)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHH
Confidence             245567778899999999999999998854 224567888889999999999999999999987544345678899999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhc-----ch
Q 039177          356 LASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVS-----KL  430 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~-----~~  430 (453)
                      |.+.|++++|...++++.+.  .|+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..     ..
T Consensus       259 ~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~  334 (389)
T PRK11788        259 YQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRA  334 (389)
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccc
Confidence            99999999999999999876  466667788999999999999999999998854  7999999988876543     34


Q ss_pred             hhHHHHHHHHHHhhh
Q 039177          431 DFVNTSFIRLVDQIL  445 (453)
Q Consensus       431 ~~~~~~~~~~~~~~~  445 (453)
                      +.+...++++.++..
T Consensus       335 ~~a~~~~~~~~~~~~  349 (389)
T PRK11788        335 KESLLLLRDLVGEQL  349 (389)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            455566777776554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=1.8e-16  Score=156.95  Aligned_cols=315  Identities=7%  Similarity=-0.035  Sum_probs=227.5

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------C
Q 039177           84 HFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------I  147 (453)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~  147 (453)
                      ..++..+.+.|++++|..+++......  +.+...+..++.+....|++++|+..|+++...+                .
T Consensus        46 ~~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~  123 (656)
T PRK15174         46 ILFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKS  123 (656)
T ss_pred             HHHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHc
Confidence            345556666677777777777666653  3344455555566666777777777776655433                4


Q ss_pred             CcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHH
Q 039177          148 NRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALG  227 (453)
Q Consensus       148 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  227 (453)
                      |++++|+..++++.... +.+...+..+...+...|+.  ++|...++.+.... +.+...+..+ ..+...|++++|+.
T Consensus       124 g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~--~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        124 KQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKE--LQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCh--HHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHH
Confidence            56666666666666531 23456777888888999988  88998888776654 2233333333 34788899999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH----HHHHHHHHH
Q 039177          228 ILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEA----GIKMIACME  303 (453)
Q Consensus       228 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~----a~~~~~~m~  303 (453)
                      +++.+.+....++...+..+..++...|++++|+..+++..+.. +.+...+..+...+...|++++    |...|+...
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            99988776544455555666778888999999999999988764 3456777788888899998885    788888888


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-h
Q 039177          304 ELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS-S  382 (453)
Q Consensus       304 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-~  382 (453)
                      +... .+...+..+...+.+.|++++|...++...+.... +...+..+..+|.+.|++++|...++.+...+  |+. .
T Consensus       278 ~l~P-~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~  353 (656)
T PRK15174        278 QFNS-DNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTSK  353 (656)
T ss_pred             hhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchH
Confidence            7532 24568888889999999999999999998887554 56677788888999999999999999888753  333 2


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      .+..+..++...|+.++|...|++..+.
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3444566788899999999999988753

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

Probab=99.83  E-value=2.2e-17  Score=150.20  Aligned_cols=324  Identities=14%  Similarity=0.066  Sum_probs=242.1

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----------  146 (453)
                      --.++|+.+.+.+-..|++++|+.+++.+.+..  +.....|..+..++...|+.+.|...|....+.+           
T Consensus       114 q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~--p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lg  191 (966)
T KOG4626|consen  114 QGAEAYSNLANILKERGQLQDALALYRAAIELK--PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLG  191 (966)
T ss_pred             hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC--chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchh
Confidence            346789999999999999999999999999874  5567789999999999999999998888766554           


Q ss_pred             ---------------------------------------CCcHHHHHHHHHHHHHCCCccC-hHhHHHHHHHHHhcCCCC
Q 039177          147 ---------------------------------------INRVGFAIEILNCMINDGFCVD-GKTCSLILSSVCEQRDLS  186 (453)
Q Consensus       147 ---------------------------------------~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~  186 (453)
                                                             .|+.-.|+..|++.+.  +.|+ ...|-.|...|...+.+ 
T Consensus       192 nLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~-  268 (966)
T KOG4626|consen  192 NLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIF-  268 (966)
T ss_pred             HHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcc-
Confidence                                                   3444455555555443  2233 23455555555555555 


Q ss_pred             hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          187 SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDE  266 (453)
Q Consensus       187 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  266 (453)
                       ++|...+....... +-...++..|...|-..|.++.|+..|++..+..+. =...|+.|..++...|++.+|++.|..
T Consensus       269 -d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnk  345 (966)
T KOG4626|consen  269 -DRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNK  345 (966)
T ss_pred             -hHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHH
Confidence             55555555444432 223445666666666777777777777777765333 356788888888888888888888888


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 039177          267 LLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV-ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN  345 (453)
Q Consensus       267 m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  345 (453)
                      .+... ..-..+.+.+...|...|.+++|..+|....+  +.|.- ..++.|...|-+.|++++|+..+++.++-.+. =
T Consensus       346 aL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~-f  421 (966)
T KOG4626|consen  346 ALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPT-F  421 (966)
T ss_pred             HHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCch-H
Confidence            87753 23356677888888899999999998888877  34553 47888999999999999999999988876332 3


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          346 LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       346 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      ...|+.+...|-..|+++.|.+.+.+.+..+ +.-...++.|...|...|++.+|+.-+++.+  .++||.
T Consensus       422 Ada~~NmGnt~ke~g~v~~A~q~y~rAI~~n-Pt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPDf  489 (966)
T KOG4626|consen  422 ADALSNMGNTYKEMGDVSAAIQCYTRAIQIN-PTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPDF  489 (966)
T ss_pred             HHHHHhcchHHHHhhhHHHHHHHHHHHHhcC-cHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCCC
Confidence            4688899999999999999999999888754 2234568889999999999999999999988  567774

>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=99.82  E-value=6e-16  Score=153.50  Aligned_cols=63  Identities=10%  Similarity=0.121  Sum_probs=39.1

Q ss_pred             CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 039177           75 NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLF  139 (453)
Q Consensus        75 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  139 (453)
                      .+.|++..|..+..++.+.|+++.|+..++...+..  +.+...+..+..+|...|++++|+.-|
T Consensus       155 ~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~a~a~~~lg~~~eA~~~~  217 (615)
T TIGR00990       155 ECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD--PDYSKALNRRANAYDGLGKYADALLDL  217 (615)
T ss_pred             hcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            345566666666666666666666666666666542  445556666666666666666665433

>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=99.80  E-value=7.2e-15  Score=145.84  Aligned_cols=348  Identities=12%  Similarity=-0.006  Sum_probs=251.1

Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------
Q 039177           83 YHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------  146 (453)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------  146 (453)
                      +......+.+.|+++.|+..|+...+.   .|+...|..+..+|.+.|++++|++.++...+.+                
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~---~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC---KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH
Confidence            446778888999999999999999865   5678899999999999999999999999877655                


Q ss_pred             CCcHHHHHHHHHHHHHCC----------------------------Ccc-ChHhHHHHHHHH------------------
Q 039177          147 INRVGFAIEILNCMINDG----------------------------FCV-DGKTCSLILSSV------------------  179 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~----------------------------~~p-~~~~~~~ll~~~------------------  179 (453)
                      .|++++|+..|......+                            ..| +...+..+...+                  
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            688888876654432211                            001 000000000000                  


Q ss_pred             ------------------HhcCCCChHHHHHHHHHHHHcC-C-CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039177          180 ------------------CEQRDLSSDELLGFVQEMKKLG-F-CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKP  239 (453)
Q Consensus       180 ------------------~~~~~~~~~~a~~~~~~~~~~g-~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (453)
                                        ...+.+  ++|.+.|+...+.+ . +.....|+.+...+...|++++|+..|++..+.... 
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~~y--~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P~-  363 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADESY--EEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPR-  363 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhhhH--HHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-
Confidence                              011234  67888888887764 2 334566888888999999999999999999876432 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      +...|..+...+...|++++|...|+..++.. +.+...|..+...+...|++++|...|+...+... .+...+..+..
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P-~~~~~~~~la~  441 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP-DFIFSHIQLGV  441 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc-cCHHHHHHHHH
Confidence            46678888888999999999999999988754 34577888888899999999999999999988542 24567778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh------hHHHHHHHHHh
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSS------MFDETICGLCQ  393 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~------~~~~li~~~~~  393 (453)
                      .+.+.|++++|+..|+...+.... +...++.+...+...|++++|+..|++..+.....+..      .++.....+..
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~  520 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKNFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQW  520 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHH
Confidence            999999999999999998886443 67788899999999999999999999987753221111      12222233445


Q ss_pred             CCCHHHHHHHHHHHhhCCCCCCHH-HHHHHHhchh--cchhhHHHHHHHHH
Q 039177          394 RGLVRKALELLKQMADKDVSPGAR-VWEALLLSSV--SKLDFVNTSFIRLV  441 (453)
Q Consensus       394 ~g~~~~A~~~~~~m~~~~~~p~~~-~~~~ll~a~~--~~~~~~~~~~~~~~  441 (453)
                      .|++++|.+++++..+.  .|+.. .+..+-..+.  ++.+.+...+.+..
T Consensus       521 ~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~  569 (615)
T TIGR00990       521 KQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAA  569 (615)
T ss_pred             hhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            68999999999998754  45443 4555555443  34444444444443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.79  E-value=3.9e-15  Score=147.43  Aligned_cols=320  Identities=11%  Similarity=0.022  Sum_probs=243.6

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC------------
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR------------  146 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------  146 (453)
                      ++..+..++.++...|+++.|...++.+....  |.+...+..+...+...|++++|+..|++....+            
T Consensus        75 ~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~--P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~  152 (656)
T PRK15174         75 GRDLLRRWVISPLASSQPDAVLQVVNKLLAVN--VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLR  152 (656)
T ss_pred             chhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            34455666677778999999999999999874  5667788999999999999999999999877643            


Q ss_pred             ----CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh
Q 039177          147 ----INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV  222 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  222 (453)
                          .|++++|...++.+....-. +...+.. +..+...|+.  ++|...++.+.+....++...+..+...+.+.|++
T Consensus       153 ~l~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~-~~~l~~~g~~--~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~  228 (656)
T PRK15174        153 TLVLMDKELQAISLARTQAQEVPP-RGDMIAT-CLSFLNKSRL--PEDHDLARALLPFFALERQESAGLAVDTLCAVGKY  228 (656)
T ss_pred             HHHHCCChHHHHHHHHHHHHhCCC-CHHHHHH-HHHHHHcCCH--HHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCH
Confidence                68899999999888764322 2223333 3447788988  99999999987765333444556667889999999


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVK----AEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKM  298 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~----a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~  298 (453)
                      ++|+..++++.+.... +...+..+...+...|++++    |+..|+...+.. +.+...+..+...+.+.|++++|...
T Consensus       229 ~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~  306 (656)
T PRK15174        229 QEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPL  306 (656)
T ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999987544 67788889999999999986    899999998854 34567888999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          299 IACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLC  378 (453)
Q Consensus       299 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  378 (453)
                      ++...+.... +...+..+..+|.+.|++++|...++.+.+.+.. +...+..+..++...|+.++|...|++..+....
T Consensus       307 l~~al~l~P~-~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        307 LQQSLATHPD-LPYVRAMYARALRQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            9999985422 4557778889999999999999999999987443 3334455677889999999999999998876322


Q ss_pred             CChhhHH----HHHHHHHhCCCHHHHHHHHHHHh
Q 039177          379 TQSSMFD----ETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       379 ~~~~~~~----~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      -....|.    .+-.++...+..++....+.++.
T Consensus       385 ~~~~~~~ea~~~~~~~~~~~~~~~~~~~W~~~~~  418 (656)
T PRK15174        385 HLPQSFEEGLLALDGQISAVNLPPERLDWAWEVA  418 (656)
T ss_pred             hchhhHHHHHHHHHHHHHhcCCccchhhHHHHHh
Confidence            1222233    33333444455544444555544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.77  E-value=3.4e-14  Score=150.31  Aligned_cols=314  Identities=11%  Similarity=0.002  Sum_probs=216.2

Q ss_pred             HHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--------------------
Q 039177           87 IKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--------------------  146 (453)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------------------  146 (453)
                      ...+...|++++|+..|+...+..  +.+..++..+..+|.+.|++++|+..|++..+.+                    
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~  353 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWL  353 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHH
Confidence            455667888888888888888763  5577788888888888888888888887765422                    


Q ss_pred             ----------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHH-----
Q 039177          147 ----------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTN-----  211 (453)
Q Consensus       147 ----------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~-----  211 (453)
                                .+++++|+..|++.+... +.+...+..+...+...|+.  ++|.+.|+++.+.. +.+...+..     
T Consensus       354 ~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~--~eA~~~y~~aL~~~-p~~~~a~~~L~~l~  429 (1157)
T PRK11447        354 LIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDY--AAAERYYQQALRMD-PGNTNAVRGLANLY  429 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence                      356677788888777642 23455666777788888888  88888888877653 222222222     


Q ss_pred             -------------------------------------HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039177          212 -------------------------------------VIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQ  254 (453)
Q Consensus       212 -------------------------------------li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  254 (453)
                                                           +...+...|++++|++.|++..+..+. +...+..+...|.+.
T Consensus       430 ~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~  508 (1157)
T PRK11447        430 RQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQA  508 (1157)
T ss_pred             HhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence                                                 334455678888888888888876544 566777788888888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-----------------------------
Q 039177          255 EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL-----------------------------  305 (453)
Q Consensus       255 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----------------------------  305 (453)
                      |++++|...++++.+... .+...+..+...+...++.++|...++.+...                             
T Consensus       509 G~~~~A~~~l~~al~~~P-~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        509 GQRSQADALMRRLAQQKP-NDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             CCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            999999888888876431 22222222222233344444444333322100                             


Q ss_pred             ----------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          306 ----------GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       306 ----------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                                ....+...+..+...+.+.|++++|+..|+.+.+..+. +...+..+...|...|+.++|.+.++...+.
T Consensus       588 ~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~  666 (1157)
T PRK11447        588 KEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPAT  666 (1157)
T ss_pred             CHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc
Confidence                      01234445667778888888999999999888887555 6778888888888889999999998877654


Q ss_pred             CCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          376 GLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       376 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      . ..+..++..+..++...|++++|.++++++...
T Consensus       667 ~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        667 A-NDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             C-CCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            2 223445666777888889999999999988753

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=2.6e-14  Score=124.94  Aligned_cols=318  Identities=16%  Similarity=0.159  Sum_probs=217.6

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCC-------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhc
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQ  182 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  182 (453)
                      ..++.+||.+.++-...+.|.+++.+-....             ...+....++..+|....+.||..|||+++++.++.
T Consensus       207 ~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~akf  286 (625)
T KOG4422|consen  207 DETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAAKF  286 (625)
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHHHh
Confidence            3455555555555555555555554433221             111222345677799999999999999999999999


Q ss_pred             CCCC--hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH-HHHHHHHHHh----CCCCC----CHHHHHHHHHHH
Q 039177          183 RDLS--SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD-ALGILNQMKS----DGIKP----DIVCYTMVLNGV  251 (453)
Q Consensus       183 ~~~~--~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~----~~~~~----~~~~~~~ll~~~  251 (453)
                      |++.  ...+.+++.+|++.|+.|+..+|..+|..+++.++..+ |..++.++..    +.++|    |...|...+..|
T Consensus       287 g~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic  366 (625)
T KOG4422|consen  287 GKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSIC  366 (625)
T ss_pred             cchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHH
Confidence            9762  25677889999999999999999999999999988754 4444444432    22332    566788888999


Q ss_pred             HhcCCHHHHHHHHHHHHHCC----CCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          252 IVQEDYVKAEELFDELLVLG----LVPD---VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       252 ~~~g~~~~a~~~~~~m~~~g----~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                      .+..+.+.|.++..-+....    +.|+   ..-|..+....|+....+.....|+.|.-.-+-|+..+...++++..-.
T Consensus       367 ~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~  446 (625)
T KOG4422|consen  367 SSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVA  446 (625)
T ss_pred             HHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhc
Confidence            99999999999887664321    1222   2335667778889999999999999999877789999999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC-CH--------HH-----HHHHH-------HHHHHCCCCCChhh
Q 039177          325 RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG-DI--------IE-----ACGLL-------EEALNKGLCTQSSM  383 (453)
Q Consensus       325 ~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~--------~~-----A~~~~-------~~m~~~~~~~~~~~  383 (453)
                      |.++-.-++|.+++..|...+...-.-++..+++.. +.        ..     |..++       .+|.+.  ......
T Consensus       447 ~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~--~~~~t~  524 (625)
T KOG4422|consen  447 NRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ--DWPATS  524 (625)
T ss_pred             CcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc--cCChhH
Confidence            999999999999999886555555555555555433 11        11     11121       122222  334445


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhhCC----CCCCHHHHHHHHhchhcchhhHHH
Q 039177          384 FDETICGLCQRGLVRKALELLKQMADKD----VSPGARVWEALLLSSVSKLDFVNT  435 (453)
Q Consensus       384 ~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~p~~~~~~~ll~a~~~~~~~~~~  435 (453)
                      .+.+...+.+.|..++|.++|.-+.+++    ..|......-++++...+.+...+
T Consensus       525 l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA  580 (625)
T KOG4422|consen  525 LNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQA  580 (625)
T ss_pred             HHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHH
Confidence            7777888899999999999999986543    234333344555555555554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.74  E-value=1.7e-13  Score=138.73  Aligned_cols=357  Identities=14%  Similarity=0.085  Sum_probs=231.9

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC------------
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR------------  146 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------  146 (453)
                      +...+..+..++.+.|++++|..+++...+..  +.+...+..+..++...|++++|+..++++.+..            
T Consensus        48 ~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~~~~la~~  125 (765)
T PRK10049         48 PARGYAAVAVAYRNLKQWQNSLTLWQKALSLE--PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKANLLALAYV  125 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            34457778888888888888888888887663  5556677788888888888888888887765432            


Q ss_pred             ---CCcHHHHHHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh------hhHHHHHHHH
Q 039177          147 ---INRVGFAIEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM------VDYTNVIRSL  216 (453)
Q Consensus       147 ---~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~------~~~~~li~~~  216 (453)
                         .|+.++|+..++++...  .| +...+..+..++...+..  +.|+..++....   .|+.      .....++..+
T Consensus       126 l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~--e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~  198 (765)
T PRK10049        126 YKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLS--APALGAIDDANL---TPAEKRDLEADAAAELVRLS  198 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCh--HHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhh
Confidence               45566666666666653  23 233344445555555555  556655554332   1110      0111122222


Q ss_pred             H-----hcCCh---hHHHHHHHHHHhC-CCCCCHH-HHH----HHHHHHHhcCCHHHHHHHHHHHHHCCCC-CChhhHHH
Q 039177          217 V-----KKEKV---FDALGILNQMKSD-GIKPDIV-CYT----MVLNGVIVQEDYVKAEELFDELLVLGLV-PDVYTYNV  281 (453)
Q Consensus       217 ~-----~~g~~---~~a~~~~~~m~~~-~~~~~~~-~~~----~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~~~~~~~  281 (453)
                      .     ..+++   ++|++.++.+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+.+.+.. |+. .-..
T Consensus       199 ~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~  277 (765)
T PRK10049        199 FMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRW  277 (765)
T ss_pred             cccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHH
Confidence            1     11223   5667777777643 1222221 111    1134556779999999999999887532 322 2223


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CcC--
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKP---DVITYNTLLQALCKVRELNRLRELVKEMKWKGI-----------VLN--  345 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----------~p~--  345 (453)
                      +..+|...|++++|...|+.+.+.....   .......+..++.+.|++++|..+++.+.....           .|+  
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~  357 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDD  357 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCch
Confidence            5678999999999999999987643211   134566777788999999999999999887632           123  


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHH-HHH
Q 039177          346 -LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWE-ALL  423 (453)
Q Consensus       346 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~ll  423 (453)
                       ...+..+...+...|+.++|+++++++.... +.+...+..+...+...|++++|++.+++..+  +.|+...+. ...
T Consensus       358 ~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a  434 (765)
T PRK10049        358 WLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQA  434 (765)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHH
Confidence             2355677788889999999999999998764 44567788889999999999999999999884  457643332 222


Q ss_pred             hch--hcchhhHHHHHHHHHHhhhcCC
Q 039177          424 LSS--VSKLDFVNTSFIRLVDQILNTP  448 (453)
Q Consensus       424 ~a~--~~~~~~~~~~~~~~~~~~~~~p  448 (453)
                      ..+  .++.+.+...+.++++..+++|
T Consensus       435 ~~al~~~~~~~A~~~~~~ll~~~Pd~~  461 (765)
T PRK10049        435 WTALDLQEWRQMDVLTDDVVAREPQDP  461 (765)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCCCCH
Confidence            222  3566666667777777666554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.74  E-value=2.2e-13  Score=144.21  Aligned_cols=353  Identities=10%  Similarity=0.010  Sum_probs=243.6

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccC-------------
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKF-------------  145 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------  145 (453)
                      +...+..+...+...|++++|++.|+.+.+..  +.+...+..+...|. .++.++|+.+++.++..             
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            44556667777788888888888888877653  445556666666664 45677777777655421             


Q ss_pred             ------------CCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039177          146 ------------RINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVI  213 (453)
Q Consensus       146 ------------~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  213 (453)
                                  ..+++++|++.|++.+... +-+...+..+...+.+.|+.  ++|...++++.+.. +.+...+..+.
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~--~~A~~~l~~al~~~-P~~~~~~~a~a  536 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQR--SQADALMRRLAQQK-PNDPEQVYAYG  536 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence                        1577778888887777642 12445666777777788877  78888887776643 33444555555


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHH---------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          214 RSLVKKEKVFDALGILNQMKSDGIKPDIV---------CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---------~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      ..+...++.++|+..++.+......++..         .+..+...+...|+.++|..+++.     .+.+...+..+..
T Consensus       537 l~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~  611 (1157)
T PRK11447        537 LYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLAD  611 (1157)
T ss_pred             HHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHH
Confidence            56667788888888777765432222211         122345667788888888888772     2455667778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      .+.+.|+.++|++.|+...+... .+...+..+...|...|++++|++.++.+.+.... +...+..+..++...|++++
T Consensus       612 ~~~~~g~~~~A~~~y~~al~~~P-~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~-~~~~~~~la~~~~~~g~~~e  689 (1157)
T PRK11447        612 WAQQRGDYAAARAAYQRVLTREP-GNADARLGLIEVDIAQGDLAAARAQLAKLPATAND-SLNTQRRVALAWAALGDTAA  689 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCC-ChHHHHHHHHHHHhCCCHHH
Confidence            99999999999999999998642 25678999999999999999999999988876433 56677778889999999999


Q ss_pred             HHHHHHHHHHCCC--CC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-CCCCCC----HHHHHHHHhchhcchhhHH
Q 039177          365 ACGLLEEALNKGL--CT---QSSMFDETICGLCQRGLVRKALELLKQMAD-KDVSPG----ARVWEALLLSSVSKLDFVN  434 (453)
Q Consensus       365 A~~~~~~m~~~~~--~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~p~----~~~~~~ll~a~~~~~~~~~  434 (453)
                      |.++++++.....  .|   +...+..+...+...|+.++|+..|++... .|+.|+    ..++..+.. .....++..
T Consensus       690 A~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~~p~~~~~~~~l~~-~~~~~~~l~  768 (1157)
T PRK11447        690 AQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPTRPQDNDTFTRLTR-NDEKDDWLK  768 (1157)
T ss_pred             HHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCCCCCCchHHHHHhc-cccCchhhh
Confidence            9999999987532  12   223566667888999999999999999763 445432    234554442 222333444


Q ss_pred             HHHHHHHHhhhc
Q 039177          435 TSFIRLVDQILN  446 (453)
Q Consensus       435 ~~~~~~~~~~~~  446 (453)
                      ..+..++..++.
T Consensus       769 ~~v~~~~~~l~~  780 (1157)
T PRK11447        769 RGVRSDAADLYR  780 (1157)
T ss_pred             hhHHHHHHHHHh
Confidence            445555555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.70  E-value=1.1e-12  Score=132.77  Aligned_cols=333  Identities=13%  Similarity=0.055  Sum_probs=238.7

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----------  146 (453)
                      .++..+..+...+...|++++|...++.+.+..  +.+.. +..+..++...|+.++|+..++++.+..           
T Consensus        81 ~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~--P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la  157 (765)
T PRK10049         81 QNDDYQRGLILTLADAGQYDEALVKAKQLVSGA--PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYV  157 (765)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            346677788899999999999999999999873  56677 8899999999999999999999988766           


Q ss_pred             -----CCcHHHHHHHHHHHHHCCCccCh------HhHHHHHHHHHhcCCCC------hHHHHHHHHHHHHc-CCCcChh-
Q 039177          147 -----INRVGFAIEILNCMINDGFCVDG------KTCSLILSSVCEQRDLS------SDELLGFVQEMKKL-GFCFGMV-  207 (453)
Q Consensus       147 -----~~~~~~a~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~~~~~------~~~a~~~~~~~~~~-g~~~~~~-  207 (453)
                           .+..+.|+..++....   .|+.      .....++..........      .++|+..++.+.+. ...|+.. 
T Consensus       158 ~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~  234 (765)
T PRK10049        158 QALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATA  234 (765)
T ss_pred             HHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccch
Confidence                 3445555555543332   2221      01222222222111110      14577777777754 2223221 


Q ss_pred             hH----HHHHHHHHhcCChhHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhhH
Q 039177          208 DY----TNVIRSLVKKEKVFDALGILNQMKSDGIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP---DVYTY  279 (453)
Q Consensus       208 ~~----~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~---~~~~~  279 (453)
                      .+    ...+..+...|++++|+..|+.+.+.+.. |+. .-..+...|...|++++|+.+|+.+.+.....   .....
T Consensus       235 ~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~  313 (765)
T PRK10049        235 DYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEEL  313 (765)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHH
Confidence            11    11134556779999999999999987643 332 22225778999999999999999987643111   12345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGS-----------KPD---VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN  345 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------~p~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  345 (453)
                      ..+..++.+.|++++|..+++.+.....           .|+   ...+..+...+...|++++|+.+++++....+. +
T Consensus       314 ~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~-n  392 (765)
T PRK10049        314 ADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPG-N  392 (765)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-C
Confidence            6667788999999999999999987531           123   235567778899999999999999999988655 7


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 039177          346 LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEA  421 (453)
Q Consensus       346 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  421 (453)
                      ...+..+...+...|++++|++.+++..+.. +-+...+......+...|++++|..+++++++  ..|+......
T Consensus       393 ~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~--~~Pd~~~~~~  465 (765)
T PRK10049        393 QGLRIDYASVLQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVA--REPQDPGVQR  465 (765)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCCCCHHHHH
Confidence            8899999999999999999999999998864 33455666677788999999999999999995  3555544333

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.68  E-value=8.8e-12  Score=124.41  Aligned_cols=324  Identities=12%  Similarity=0.102  Sum_probs=202.6

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CC
Q 039177           85 FVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------IN  148 (453)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~  148 (453)
                      .++..+...|+.++|...+++....  .+.+......+...|...|++++|+++|+++.+.+                .+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p--~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSS--MNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcC
Confidence            6666666677777777777776622  23334444444556677777777777777766554                45


Q ss_pred             cHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHH
Q 039177          149 RVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGI  228 (453)
Q Consensus       149 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  228 (453)
                      ..++|++.++.+...  .|+...+..++..+...++.  .+|++.++++.+.. +.+...+..++.+..+.|-...|.++
T Consensus       151 q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~--~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l  225 (822)
T PRK14574        151 RGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRN--YDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRL  225 (822)
T ss_pred             CHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHH
Confidence            666666666666543  34444442222222222222  45677777776664 33455556666666655554444433


Q ss_pred             HHHH------------------------------------------------HhC-CCCCCH-H----HHHHHHHHHHhc
Q 039177          229 LNQM------------------------------------------------KSD-GIKPDI-V----CYTMVLNGVIVQ  254 (453)
Q Consensus       229 ~~~m------------------------------------------------~~~-~~~~~~-~----~~~~ll~~~~~~  254 (453)
                      ..+-                                                ... +..|.. .    +..-.+-++...
T Consensus       226 ~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r  305 (822)
T PRK14574        226 AKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVR  305 (822)
T ss_pred             HHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHh
Confidence            3211                                                110 011111 1    111233455666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHH
Q 039177          255 EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG-----SKPDVITYNTLLQALCKVRELNR  329 (453)
Q Consensus       255 g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~~~~~~  329 (453)
                      |+..++++.|+.+...|.+....+-.++.++|...+++++|..+|+.+....     ..++......|..+|...+++++
T Consensus       306 ~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~  385 (822)
T PRK14574        306 HQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDK  385 (822)
T ss_pred             hhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHH
Confidence            7788888888888877766566677888888888888888888888886643     12234445778888888888888


Q ss_pred             HHHHHHHHHHCCC-------------CcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          330 LRELVKEMKWKGI-------------VLNLQ-TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       330 a~~~~~~~~~~~~-------------~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      |..+++.+.+..+             .||-. .+..++..+...|++.+|++.++++.... +-|..+...+...+...|
T Consensus       386 A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg  464 (822)
T PRK14574        386 AYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARD  464 (822)
T ss_pred             HHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            8888888887321             22222 33445667788888888988888886654 557777888888888889


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHH
Q 039177          396 LVRKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       396 ~~~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      .+.+|.+.++...  .+.|+...
T Consensus       465 ~p~~A~~~~k~a~--~l~P~~~~  485 (822)
T PRK14574        465 LPRKAEQELKAVE--SLAPRSLI  485 (822)
T ss_pred             CHHHHHHHHHHHh--hhCCccHH
Confidence            9999988887766  44666433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=2.3e-12  Score=113.00  Aligned_cols=291  Identities=13%  Similarity=0.176  Sum_probs=149.2

Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHh---cCChhHHHHHHhhcccCC------------
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYAD---AHRFQDSVNLFYKIPKFR------------  146 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~------------  146 (453)
                      +-+.+++ +...|.+.++.-+|+.|... |++.+..+-..|++.-+-   ..-+-.-.+.|-.|.+.+            
T Consensus       118 ~E~nL~k-mIS~~EvKDs~ilY~~m~~e-~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~v  195 (625)
T KOG4422|consen  118 TENNLLK-MISSREVKDSCILYERMRSE-NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGAV  195 (625)
T ss_pred             chhHHHH-HHhhcccchhHHHHHHHHhc-CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccccH
Confidence            3444544 35568888999999999887 777777776666655332   222212223444444433            


Q ss_pred             ------------------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC
Q 039177          147 ------------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF  202 (453)
Q Consensus       147 ------------------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~  202 (453)
                                              -...+.|.+++.+-.....+.+..+||.+|.+-.-.      ...+++.+|....+
T Consensus       196 AdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~------~~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  196 ADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS------VGKKLVAEMISQKM  269 (625)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh------ccHHHHHHHHHhhc
Confidence                                    123344444444444444444555555554433221      11334445555555


Q ss_pred             CcChhhHHHHHHHHHhcCChhH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHH----CCCC
Q 039177          203 CFGMVDYTNVIRSLVKKEKVFD----ALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVK-AEELFDELLV----LGLV  273 (453)
Q Consensus       203 ~~~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~-a~~~~~~m~~----~g~~  273 (453)
                      .||..|+|+++++..+.|+++.    |.+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++..    ..++
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            5555555555555555554443    23444555555555555555555555555544422 2222222221    1111


Q ss_pred             C----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          274 P----DVYTYNVYINGLCKQNNVEAGIKMIACMEELG----SKPD---VITYNTLLQALCKVRELNRLRELVKEMKWKGI  342 (453)
Q Consensus       274 ~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  342 (453)
                      |    |...|...+..|.+..+.+.|.++..-+....    +.|+   ...|..+....|+....+.-...|+.|.-.-+
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y  429 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY  429 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee
Confidence            1    33344444555555555555555544433210    1122   12345555555666666666666666665555


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 039177          343 VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ  380 (453)
Q Consensus       343 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~  380 (453)
                      -|+..+...++++....|.++-.-++|..++..|....
T Consensus       430 ~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r  467 (625)
T KOG4422|consen  430 FPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFR  467 (625)
T ss_pred             cCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhh
Confidence            56666666666666666666666666666666554333

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.66  E-value=5.7e-12  Score=128.29  Aligned_cols=324  Identities=9%  Similarity=-0.035  Sum_probs=234.1

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHhcCChh---HHHHHHhhcccCC----CCcH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKR-ENFETPEFIFIDLIKTYADAHRFQ---DSVNLFYKIPKFR----INRV  150 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~---~A~~~~~~~~~~~----~~~~  150 (453)
                      +......+--...+.|+.++|.++++..... ..-..+..+...++..|.+.+...   ++..+-..+....    .++.
T Consensus       375 ~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  454 (987)
T PRK09782        375 NLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQL  454 (987)
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhh
Confidence            4444445555567788888888888888762 112235667778888888888744   3433322222222    2333


Q ss_pred             HHHHHHHHHHHH-CCC-cc--ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHH
Q 039177          151 GFAIEILNCMIN-DGF-CV--DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       151 ~~a~~~~~~m~~-~~~-~p--~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  226 (453)
                      .++......... .+. ++  +...|..+..++.. ++.  ++|...+.+.....  |+......+...+...|++++|.
T Consensus       455 ~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~--~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi  529 (987)
T PRK09782        455 PGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLP--GVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATAL  529 (987)
T ss_pred             hhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCc--HHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHH
Confidence            333333333322 122 23  45667777776665 666  78998777776654  55444444455557899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      ..|+++...  .|+...+..+..++.+.|++++|...++..++.. +.+...+..+.....+.|++++|...+++..+. 
T Consensus       530 ~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l-  605 (987)
T PRK09782        530 AAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI-  605 (987)
T ss_pred             HHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh-
Confidence            999998664  3445556677888899999999999999998864 222333333334445669999999999999985 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDE  386 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  386 (453)
                       .|+...+..+..++.+.|++++|+..++......+. +...+..+...+...|+.++|+..+++..+.. +-+...+..
T Consensus       606 -~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~n  682 (987)
T PRK09782        606 -APSANAYVARATIYRQRHNVPAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQ  682 (987)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence             477888999999999999999999999999998666 77888999999999999999999999998864 345677888


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          387 TICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      +..++...|++++|...+++..+  +.|+.
T Consensus       683 LA~al~~lGd~~eA~~~l~~Al~--l~P~~  710 (987)
T PRK09782        683 LAYVNQRLDDMAATQHYARLVID--DIDNQ  710 (987)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHh--cCCCC
Confidence            99999999999999999999984  45654

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

Probab=99.66  E-value=1.5e-13  Score=125.63  Aligned_cols=290  Identities=12%  Similarity=0.079  Sum_probs=160.2

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CCcHHHHHHHHHHHHHCCCccChHhHHH-H
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------INRVGFAIEILNCMINDGFCVDGKTCSL-I  175 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~-l  175 (453)
                      +.-..+|..+...+-..|++++|+..|+.+.+.+                .|+.+.|.+.|.+.++  +.|+.....+ +
T Consensus       113 ~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~l  190 (966)
T KOG4626|consen  113 PQGAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDL  190 (966)
T ss_pred             chHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcch
Confidence            3345688889999999999999999999887765                5777888888877775  3465554333 2


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039177          176 LSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE  255 (453)
Q Consensus       176 l~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  255 (453)
                      ...+...|.+  .+|...+.+..+.. +.=...|..|...+-..|++..|+..|++..+.++. =...|-.|...|...+
T Consensus       191 gnLlka~Grl--~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~-f~dAYiNLGnV~ke~~  266 (966)
T KOG4626|consen  191 GNLLKAEGRL--EEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPN-FLDAYINLGNVYKEAR  266 (966)
T ss_pred             hHHHHhhccc--chhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCc-chHHHhhHHHHHHHHh
Confidence            3333445666  66666665555543 122345777777777777777777777777654322 2334555555555555


Q ss_pred             CHHHHHHHHHHHHHCC--------------------------------CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          256 DYVKAEELFDELLVLG--------------------------------LVPD-VYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       256 ~~~~a~~~~~~m~~~g--------------------------------~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      .++.|...|.+.....                                +.|+ ...|+.|..+.-..|++.+|++.|...
T Consensus       267 ~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  267 IFDRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             cchHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            5555555555544321                                1121 334455555555555555555555544


Q ss_pred             HHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-
Q 039177          303 EELGSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ-  380 (453)
Q Consensus       303 ~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-  380 (453)
                      ...  .|+ ....+.|...|...|.+++|..+|....+.... -...++.|...|-+.|++++|+..+++...  +.|+ 
T Consensus       347 L~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~f  421 (966)
T KOG4626|consen  347 LRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTF  421 (966)
T ss_pred             HHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchH
Confidence            442  122 234444555555555555555555544443221 223445555555555555555555555443  2232 


Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC
Q 039177          381 SSMFDETICGLCQRGLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       381 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      ...|+.+-..|-..|+.+.|++.+.+.+  .+.|.
T Consensus       422 Ada~~NmGnt~ke~g~v~~A~q~y~rAI--~~nPt  454 (966)
T KOG4626|consen  422 ADALSNMGNTYKEMGDVSAAIQCYTRAI--QINPT  454 (966)
T ss_pred             HHHHHhcchHHHHhhhHHHHHHHHHHHH--hcCcH
Confidence            2344555555555555555555555544  34444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.63  E-value=4.2e-11  Score=119.60  Aligned_cols=327  Identities=12%  Similarity=0.036  Sum_probs=247.5

Q ss_pred             HHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------------CCcHH
Q 039177           87 IKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------------INRVG  151 (453)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------------~~~~~  151 (453)
                      ...+...|+++.|.++|+.+.+..  +.+..++..++..|.+.++.++|++.++++...+               .+...
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~d--P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKD--PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHH
Confidence            457777899999999999999874  5667788888999999999999999999987765               35565


Q ss_pred             HHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCCh--------------------------------------------
Q 039177          152 FAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS--------------------------------------------  187 (453)
Q Consensus       152 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~--------------------------------------------  187 (453)
                      +|++.++++.... +-+...+..+..++.+.|-...                                            
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            6899999998753 2245556666666666665411                                            


Q ss_pred             --HHHHHHHHHHHHc-CCCcCh-h----hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          188 --DELLGFVQEMKKL-GFCFGM-V----DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVK  259 (453)
Q Consensus       188 --~~a~~~~~~~~~~-g~~~~~-~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  259 (453)
                        +.++.-++.+... +-.|.. .    ...-.+-++...|++.++++.|+.|...+.+....+-.++..+|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence              1122222222221 111211 1    1224456777889999999999999998876666788899999999999999


Q ss_pred             HHHHHHHHHHCC-----CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CCC--H-HHHHHHHHH
Q 039177          260 AEELFDELLVLG-----LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS-----------KPD--V-ITYNTLLQA  320 (453)
Q Consensus       260 a~~~~~~m~~~g-----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----------~p~--~-~~~~~li~~  320 (453)
                      |+.+|..+....     ..++......|..+|...+++++|..+++.+.+...           .|+  - ..+..++..
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            999999987643     122344457899999999999999999999987321           122  2 245566788


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHH
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKA  400 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  400 (453)
                      +.-.|++.+|++.++.+....+. |......+.+.+...|.+.+|.+.++...... +-+..+.......+...|++++|
T Consensus       426 ~~~~gdl~~Ae~~le~l~~~aP~-n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~-P~~~~~~~~~~~~al~l~e~~~A  503 (822)
T PRK14574        426 LVALNDLPTAQKKLEDLSSTAPA-NQNLRIALASIYLARDLPRKAEQELKAVESLA-PRSLILERAQAETAMALQEWHQM  503 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhC-CccHHHHHHHHHHHHhhhhHHHH
Confidence            89999999999999999888766 99999999999999999999999997766553 34556677778888999999999


Q ss_pred             HHHHHHHhhCCCCCCHHHHH
Q 039177          401 LELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       401 ~~~~~~m~~~~~~p~~~~~~  420 (453)
                      ..+.+...+  ..|+.....
T Consensus       504 ~~~~~~l~~--~~Pe~~~~~  521 (822)
T PRK14574        504 ELLTDDVIS--RSPEDIPSQ  521 (822)
T ss_pred             HHHHHHHHh--hCCCchhHH
Confidence            999999874  356555433

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.58  E-value=1.9e-11  Score=114.34  Aligned_cols=283  Identities=8%  Similarity=-0.004  Sum_probs=204.0

Q ss_pred             cCCcchHHHHHHHHHHcCCCCCCHHHHHHH-HHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHh
Q 039177           93 NSQFCDISSVLDHIEKRENFETPEFIFIDL-IKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKT  171 (453)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  171 (453)
                      .|+++.|.+......+.   .+++.++..+ ..+..+.|+++.|...|.++.+                    ..|+...
T Consensus        97 eGd~~~A~k~l~~~~~~---~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~--------------------~~~~~~~  153 (398)
T PRK10747         97 EGDYQQVEKLMTRNADH---AEQPVVNYLLAAEAAQQRGDEARANQHLERAAE--------------------LADNDQL  153 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--------------------cCCcchH
Confidence            58888888777776554   2223333333 4444777888888887776332                    2455543


Q ss_pred             HH--HHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH-------H
Q 039177          172 CS--LILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI-------V  242 (453)
Q Consensus       172 ~~--~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~  242 (453)
                      ..  .....+...|+.  +.|...++.+.+.. +-+......+...|.+.|++++|.+++..+.+.+..++.       .
T Consensus       154 ~~~l~~a~l~l~~g~~--~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~  230 (398)
T PRK10747        154 PVEITRVRIQLARNEN--HAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQ  230 (398)
T ss_pred             HHHHHHHHHHHHCCCH--HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            33  234567778887  89999998888876 556777888899999999999999999999887655322       1


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      +|..++.......+.+...++++.+.+. .+.+......+...+...|+.++|.++++...+.  .+|...  .++.+..
T Consensus       231 a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l  305 (398)
T PRK10747        231 AWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRL  305 (398)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhc
Confidence            3333444444455566666777766442 2356778888888899999999999999888874  344422  2334444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHH
Q 039177          323 KVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALE  402 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  402 (453)
                      ..++.+++.+..+...+..+. |......+...|.+.|++++|.+.|+...+.  .|+...|..+...+.+.|+.++|.+
T Consensus       306 ~~~~~~~al~~~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~  382 (398)
T PRK10747        306 KTNNPEQLEKVLRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAA  382 (398)
T ss_pred             cCCChHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            568889999999888887665 7778888899999999999999999988875  5888888888999999999999999


Q ss_pred             HHHHHhh
Q 039177          403 LLKQMAD  409 (453)
Q Consensus       403 ~~~~m~~  409 (453)
                      ++++-..
T Consensus       383 ~~~~~l~  389 (398)
T PRK10747        383 MRRDGLM  389 (398)
T ss_pred             HHHHHHh
Confidence            8887653

>TIGR00540 hemY_coli hemY protein

Probab=99.57  E-value=3.1e-11  Score=113.57  Aligned_cols=288  Identities=8%  Similarity=-0.043  Sum_probs=191.2

Q ss_pred             hcCCcchHHHHHHHHHHcCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChH
Q 039177           92 ENSQFCDISSVLDHIEKRENFETP-EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGK  170 (453)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  170 (453)
                      ..|+++.|.+.+....+.   .|+ ...+-....++...|+.+.|...|.+..+                  .  .|+..
T Consensus        96 ~~g~~~~A~~~l~~~~~~---~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~------------------~--~p~~~  152 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH---AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAE------------------L--AGNDN  152 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH------------------h--CCcCc
Confidence            378888888888877665   333 33334445667777888888887776322                  1  24432


Q ss_pred             --hHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039177          171 --TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVL  248 (453)
Q Consensus       171 --~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll  248 (453)
                        ........+...|+.  +.|...++.+.+.. +-+..++..+...|.+.|++++|.+.+..+.+.++.+.......-.
T Consensus       153 l~~~~~~a~l~l~~~~~--~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~  229 (409)
T TIGR00540       153 ILVEIARTRILLAQNEL--HAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQ  229 (409)
T ss_pred             hHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence              223345666778887  88888888888876 4466778888888999999999999998888876543222211111


Q ss_pred             HHH---HhcCCHHHHHHHHHHHHHCCC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHH
Q 039177          249 NGV---IVQEDYVKAEELFDELLVLGL---VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVIT---YNTLLQ  319 (453)
Q Consensus       249 ~~~---~~~g~~~~a~~~~~~m~~~g~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~  319 (453)
                      .++   ...+..+.+.+.+..+.+...   +.+...+..+...+...|+.++|.+++++..+..  ||...   ......
T Consensus       230 ~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~  307 (409)
T TIGR00540       230 KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPI  307 (409)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHh
Confidence            111   222222323334444433221   1367778888888889999999999988888753  44432   111222


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNL--QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      .....++.+.+.+.++...+.... |.  ....++...|.+.|++++|.+.|+........|+...+..+...+.+.|+.
T Consensus       308 ~~l~~~~~~~~~~~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~  386 (409)
T TIGR00540       308 PRLKPEDNEKLEKLIEKQAKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDK  386 (409)
T ss_pred             hhcCCCChHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCH
Confidence            223456778888888877776433 44  566788888888999999999888644444567888888888888899999


Q ss_pred             HHHHHHHHHHh
Q 039177          398 RKALELLKQMA  408 (453)
Q Consensus       398 ~~A~~~~~~m~  408 (453)
                      ++|.+++++..
T Consensus       387 ~~A~~~~~~~l  397 (409)
T TIGR00540       387 AEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHHH
Confidence            99988888754

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.56  E-value=8.7e-11  Score=119.82  Aligned_cols=290  Identities=14%  Similarity=0.015  Sum_probs=215.5

Q ss_pred             cCCcchHHHHHHHHHHcCCC-CC--CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh
Q 039177           93 NSQFCDISSVLDHIEKRENF-ET--PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG  169 (453)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~~~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  169 (453)
                      .|++.++....+.+...-+. ++  +...|..+..++.. +++++|+..|.+...                    ..|+.
T Consensus       451 ~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~--------------------~~Pd~  509 (987)
T PRK09782        451 QSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQ--------------------RQPDA  509 (987)
T ss_pred             HhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHH--------------------hCCch
Confidence            55555555555555443222 44  67788888888877 788888887765322                    23665


Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN  249 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  249 (453)
                      .....+...+...|+.  ++|...|+.+...  +|+...+..+...+.+.|++++|...++...+.... +...+..+..
T Consensus       510 ~~~L~lA~al~~~Gr~--eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~-~~~l~~~La~  584 (987)
T PRK09782        510 WQHRAVAYQAYQVEDY--ATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLG-DNALYWWLHA  584 (987)
T ss_pred             HHHHHHHHHHHHCCCH--HHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCc-cHHHHHHHHH
Confidence            5444445555688998  9999999987654  455566778888999999999999999999886532 3333334444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHH
Q 039177          250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELN  328 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~  328 (453)
                      .....|++++|...+++.++..  |+...+..+..++.+.|+.++|...++...+..  | +...++.+..++...|+++
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~e  660 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE--PNNSNYQAALGYALWDSGDIA  660 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHH
Confidence            4556699999999999998854  678889999999999999999999999999864  4 4567888888999999999


Q ss_pred             HHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          329 RLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS-SMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       329 ~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      +|+..++...+..+. +...+..+..++...|++++|...|++..+..  |+. .+.........+..+++.|.+-+++-
T Consensus       661 eAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~  737 (987)
T PRK09782        661 QSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTPEQNQQRFNFRRLHEEVGRR  737 (987)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999999999998665 77889999999999999999999999998764  444 33334444555566677777766665


Q ss_pred             hhCCCCCCHH
Q 039177          408 ADKDVSPGAR  417 (453)
Q Consensus       408 ~~~~~~p~~~  417 (453)
                      .  .+.|+..
T Consensus       738 ~--~~~~~~~  745 (987)
T PRK09782        738 W--TFSFDSS  745 (987)
T ss_pred             h--hcCccch
Confidence            4  3444443

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

Probab=99.56  E-value=3.3e-14  Score=127.03  Aligned_cols=220  Identities=19%  Similarity=0.136  Sum_probs=80.1

Q ss_pred             HHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          178 SVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY  257 (453)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  257 (453)
                      .+...++.  +.|...++++...+ +-+...+..++.. ...+++++|.++++...+..  ++...+..++..+...+++
T Consensus        53 La~~~~~~--~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~  126 (280)
T PF13429_consen   53 LAWSLGDY--DEAIEAYEKLLASD-KANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDY  126 (280)
T ss_dssp             -----------------------------------------------------------------------H-HHHTT-H
T ss_pred             cccccccc--cccccccccccccc-ccccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHH
Confidence            33444555  56666666665544 1234445555555 56666666666665554432  3444555566666666666


Q ss_pred             HHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          258 VKAEELFDELLVLG-LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD-VITYNTLLQALCKVRELNRLRELVK  335 (453)
Q Consensus       258 ~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~  335 (453)
                      +++.++++.+.... ...+...|..+...+.+.|+.++|.+.+++..+..  |+ ......++..+...|+.+++..++.
T Consensus       127 ~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~--P~~~~~~~~l~~~li~~~~~~~~~~~l~  204 (280)
T PF13429_consen  127 DEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD--PDDPDARNALAWLLIDMGDYDEAREALK  204 (280)
T ss_dssp             HHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            66666666655422 23455556666666666666666666666666643  43 4456666666666666666666666


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          336 EMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       336 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      ...+.. ..|...+..+..+|...|+.++|...|++..... +.|......+..++...|+.++|.++.++.
T Consensus       205 ~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  205 RLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT---------------
T ss_pred             HHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccc
Confidence            655543 2244455666666666666666766666665543 335555666666666666666666665554

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

Probab=99.56  E-value=3.9e-14  Score=126.51  Aligned_cols=243  Identities=12%  Similarity=0.041  Sum_probs=89.4

Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHHHHcC-CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039177          174 LILSSVCEQRDLSSDELLGFVQEMKKLG-FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       174 ~ll~~~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  252 (453)
                      .+...+.+.|++  ++|.+++....... .+.+...|..+...+...++++.|++.++++...+.. +...+..++.. .
T Consensus        13 ~~A~~~~~~~~~--~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~   88 (280)
T PF13429_consen   13 RLARLLYQRGDY--EKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-L   88 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccc--cccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-c
Confidence            345556666776  77777774433332 2334455556666666777788888888777765443 45556666665 5


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG-SKPDVITYNTLLQALCKVRELNRLR  331 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~  331 (453)
                      ..+++++|.+++....+..  ++...+..++..+.+.++++++.++++.+.... ...+...|..+...+.+.|+.++|+
T Consensus        89 ~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~  166 (280)
T PF13429_consen   89 QDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKAL  166 (280)
T ss_dssp             -------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHH
T ss_pred             ccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            7777777777776655432  455666677777777788888877777766432 2345667777777777788888888


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCC
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKD  411 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  411 (453)
                      +.++...+..+. |......++..+...|+.+++.+++....+.. ..+...+..+..+|...|+.++|+.+|++..+  
T Consensus       167 ~~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~--  242 (280)
T PF13429_consen  167 RDYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALK--  242 (280)
T ss_dssp             HHHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHH--
T ss_pred             HHHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccc--
Confidence            888877776544 56677777777777787777777777766553 34455666777777777888888888887764  


Q ss_pred             CCCC-HHHHHHHHhch
Q 039177          412 VSPG-ARVWEALLLSS  426 (453)
Q Consensus       412 ~~p~-~~~~~~ll~a~  426 (453)
                      ..|+ ..+...+-.++
T Consensus       243 ~~p~d~~~~~~~a~~l  258 (280)
T PF13429_consen  243 LNPDDPLWLLAYADAL  258 (280)
T ss_dssp             HSTT-HHHHHHHHHHH
T ss_pred             cccccccccccccccc
Confidence            3453 33333444443

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

Probab=99.55  E-value=5.3e-12  Score=116.89  Aligned_cols=286  Identities=14%  Similarity=0.086  Sum_probs=221.7

Q ss_pred             CCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHH
Q 039177           94 SQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCS  173 (453)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  173 (453)
                      -+..+|..+|..+...  +.-..++..-+..+|...+++++|.++|+.+.+..                .-..-+..+|.
T Consensus       333 y~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~----------------p~rv~~meiyS  394 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIE----------------PYRVKGMEIYS  394 (638)
T ss_pred             HHHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc----------------cccccchhHHH
Confidence            3446788888886654  24445788888999999999999999998855421                01112667888


Q ss_pred             HHHHHHHhcCCCChHHHHHHH-HHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039177          174 LILSSVCEQRDLSSDELLGFV-QEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       174 ~ll~~~~~~~~~~~~~a~~~~-~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  252 (453)
                      +.|..+-+.      -++..+ +.+.+.. +-...+|.++.++|.-+++.+.|++.|++..+.+.. ...+|+.+..-+.
T Consensus       395 T~LWHLq~~------v~Ls~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~-faYayTLlGhE~~  466 (638)
T KOG1126|consen  395 TTLWHLQDE------VALSYLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPR-FAYAYTLLGHESI  466 (638)
T ss_pred             HHHHHHHhh------HHHHHHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCc-cchhhhhcCChhh
Confidence            888765432      223333 3333332 567899999999999999999999999999986443 7889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHH---HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNV---YINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNR  329 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~  329 (453)
                      ....+|.|...|+..+.    .|...|++   +...|.+.++++.|+-.|+...+.+.. +.+....+...+-+.|+.|+
T Consensus       467 ~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~  541 (638)
T KOG1126|consen  467 ATEEFDKAMKSFRKALG----VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDK  541 (638)
T ss_pred             hhHHHHhHHHHHHhhhc----CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhH
Confidence            99999999999998875    45555554   667799999999999999999985532 56677888889999999999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS-SMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      |++++++....+.+ |+-.--.-+..+...++.++|+..++++++.  .|+. ..|..+...|.+.|+.+.|+.-|..+.
T Consensus       542 AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  542 ALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             HHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            99999999988766 5555555667777889999999999999874  5554 557778889999999999999999988


Q ss_pred             hCCCC
Q 039177          409 DKDVS  413 (453)
Q Consensus       409 ~~~~~  413 (453)
                      +.+-+
T Consensus       619 ~ldpk  623 (638)
T KOG1126|consen  619 DLDPK  623 (638)
T ss_pred             cCCCc
Confidence            54333

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

Probab=99.53  E-value=8.2e-11  Score=99.80  Aligned_cols=252  Identities=12%  Similarity=0.050  Sum_probs=196.6

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh------hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM------VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIV  242 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~  242 (453)
                      ..+-.+|.+.+.+.|..  +.|+.+++.+.+.   ||.      .....|..-|...|-+|.|+++|..+.+.+.- -..
T Consensus        69 ~e~~ltLGnLfRsRGEv--DRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~ef-a~~  142 (389)
T COG2956          69 FEAHLTLGNLFRSRGEV--DRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEF-AEG  142 (389)
T ss_pred             hHHHHHHHHHHHhcchH--HHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhh-hHH
Confidence            34556788888999999  9999999998875   332      34567788899999999999999999986432 455


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV----YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD-VITYNTL  317 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l  317 (453)
                      ....|+..|-...+|++|+++-+++.+.+-++..    ..|.-+...+....+.+.|..+++...+.+  |+ +..-..+
T Consensus       143 AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~l  220 (389)
T COG2956         143 ALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIIL  220 (389)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhh
Confidence            7788999999999999999999999886644432    234555666667789999999999988854  43 3344456


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      .+.+...|+++.|.+.|+.+.+.+...-..+...|..+|.+.|+.++...++..+.+...  ....-..+........-.
T Consensus       221 G~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~--g~~~~l~l~~lie~~~G~  298 (389)
T COG2956         221 GRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT--GADAELMLADLIELQEGI  298 (389)
T ss_pred             hHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC--CccHHHHHHHHHHHhhCh
Confidence            688999999999999999999997766677889999999999999999999999988643  333333344444455567


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhh
Q 039177          398 RKALELLKQMADKDVSPGARVWEALLLSSVSKLDF  432 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~  432 (453)
                      +.|..++.+-..  -+|+...+..|+..-....++
T Consensus       299 ~~Aq~~l~~Ql~--r~Pt~~gf~rl~~~~l~daee  331 (389)
T COG2956         299 DAAQAYLTRQLR--RKPTMRGFHRLMDYHLADAEE  331 (389)
T ss_pred             HHHHHHHHHHHh--hCCcHHHHHHHHHhhhccccc
Confidence            777777777664  489999999999987666665

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

Probab=99.52  E-value=4.4e-11  Score=105.83  Aligned_cols=333  Identities=13%  Similarity=0.053  Sum_probs=219.7

Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------------
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------------  146 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------------  146 (453)
                      ..+.+.-.+.+.|.+++|+..|++....   .|+..+--.|+-++..-|+-++..+.|.++....               
T Consensus       278 il~nigvtfiq~gqy~dainsfdh~m~~---~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp  354 (840)
T KOG2003|consen  278 ILNNIGVTFIQAGQYDDAINSFDHCMEE---APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDP  354 (840)
T ss_pred             HHhhcCeeEEecccchhhHhhHHHHHHh---CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCc
Confidence            4555556678899999999999999876   6887777778888888899999999998876533               


Q ss_pred             -CCcHHHHH--HHHHHHHH------------------CCCccChH-----hHH----------------HHHHHHHhcCC
Q 039177          147 -INRVGFAI--EILNCMIN------------------DGFCVDGK-----TCS----------------LILSSVCEQRD  184 (453)
Q Consensus       147 -~~~~~~a~--~~~~~m~~------------------~~~~p~~~-----~~~----------------~ll~~~~~~~~  184 (453)
                       ...+.+++  ..+..|.+                  .-+.||-.     +..                .-...+.+.|+
T Consensus       355 ~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d  434 (840)
T KOG2003|consen  355 DDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGD  434 (840)
T ss_pred             chHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccC
Confidence             00000000  00111110                  00111110     000                01112445566


Q ss_pred             CChHHHHHHHHHHHHcCCCcChhh-------------------------------HH-----HHHHHHHhcCChhHHHHH
Q 039177          185 LSSDELLGFVQEMKKLGFCFGMVD-------------------------------YT-----NVIRSLVKKEKVFDALGI  228 (453)
Q Consensus       185 ~~~~~a~~~~~~~~~~g~~~~~~~-------------------------------~~-----~li~~~~~~g~~~~a~~~  228 (453)
                      +  +.|.+++.-+.+..-+.-...                               ||     .-.+....+|++++|.+.
T Consensus       435 ~--~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~  512 (840)
T KOG2003|consen  435 I--EGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEF  512 (840)
T ss_pred             H--HHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHH
Confidence            6  666666555444321111111                               11     111112246889999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          229 LNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSK  308 (453)
Q Consensus       229 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  308 (453)
                      |++.....-.-....|+. .-.+-..|++++|++.|-.+... +..+..+...+.+.|-...+..+|++++.+.... +.
T Consensus       513 ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip  589 (840)
T KOG2003|consen  513 YKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IP  589 (840)
T ss_pred             HHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CC
Confidence            998887532222223332 22456778999999998776432 1245667777888899999999999998877653 44


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          309 PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETI  388 (453)
Q Consensus       309 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  388 (453)
                      .|+...+-|...|-+.|+-.+|.+.+.+--+. +..+..+..=|..-|....-+++|+.+|++..-  +.|+..-|..+|
T Consensus       590 ~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmi  666 (840)
T KOG2003|consen  590 NDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMI  666 (840)
T ss_pred             CCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHH
Confidence            57789999999999999999999988766554 334777777788888888889999999998754  689999999888


Q ss_pred             HHH-HhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch
Q 039177          389 CGL-CQRGLVRKALELLKQMADKDVSPGARVWEALLLSS  426 (453)
Q Consensus       389 ~~~-~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~  426 (453)
                      ..| .+.|++.+|++++++... .+.-|...+.-|+..|
T Consensus       667 asc~rrsgnyqka~d~yk~~hr-kfpedldclkflvri~  704 (840)
T KOG2003|consen  667 ASCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKFLVRIA  704 (840)
T ss_pred             HHHHHhcccHHHHHHHHHHHHH-hCccchHHHHHHHHHh
Confidence            665 567999999999999765 3666777777777665

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.51  E-value=1.8e-10  Score=107.90  Aligned_cols=272  Identities=6%  Similarity=-0.019  Sum_probs=198.0

Q ss_pred             CCcHHHHHHHHHHHHHCCCccChHh-HHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHH--HHHHHHHhcCChh
Q 039177          147 INRVGFAIEILNCMINDGFCVDGKT-CSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYT--NVIRSLVKKEKVF  223 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~--~li~~~~~~g~~~  223 (453)
                      .|+++.|.+.+.......  +++.. |.....+..+.|+.  +.+.+.+.++.+..  |+.....  .....+...|+++
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~--~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~  170 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDE--ARANQHLERAAELA--DNDQLPVEITRVRIQLARNENH  170 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHH
Confidence            455555555544433321  12222 33334444788887  99999999998754  5543332  4467899999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-------hhHHHHHHHHHhcCCHHHHH
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV-------YTYNVYINGLCKQNNVEAGI  296 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~~~~~~a~  296 (453)
                      .|.+.++++.+..+. +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...
T Consensus       171 ~Al~~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~  249 (398)
T PRK10747        171 AARHGVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLK  249 (398)
T ss_pred             HHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            999999999988755 7888999999999999999999999999987754322       12333344444455566666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          297 KMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       297 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      ++++.+.+. .+.+......+...+...|+.++|.+++.+..+.  .|+...  .++.+....++.+++.+..+...+..
T Consensus       250 ~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~  324 (398)
T PRK10747        250 RWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH  324 (398)
T ss_pred             HHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC
Confidence            777666443 2347778899999999999999999999999885  334422  23444456699999999999998764


Q ss_pred             CCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhhH
Q 039177          377 LCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFV  433 (453)
Q Consensus       377 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~  433 (453)
                       +-|...+..+...+.+.|++++|.+.|+...  ...|+..++..+-..+...++..
T Consensus       325 -P~~~~l~l~lgrl~~~~~~~~~A~~~le~al--~~~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        325 -GDTPLLWSTLGQLLMKHGEWQEASLAFRAAL--KQRPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH--hcCCCHHHHHHHHHHHHHcCCHH
Confidence             4455668888999999999999999999999  45799999887777665444433

>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=7.8e-11  Score=104.59  Aligned_cols=292  Identities=12%  Similarity=0.023  Sum_probs=208.9

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCc-
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFC-  166 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~-  166 (453)
                      .++......+++..=.+..... |++-+..+-+-...+.-...+++.|+.+|+++.+.+                 ... 
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~-gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knD-----------------PYRl  296 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSV-GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKND-----------------PYRL  296 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhc-cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcC-----------------CCcc
Confidence            3444444555666656666555 676666666666666666677777777777754421                 111 


Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM  246 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (453)
                      -|..+|+.+|-.--....+      ..+.+-.-.-.+--..|+..+.+-|.-.++.++|+..|++..+.+.. ....|+.
T Consensus       297 ~dmdlySN~LYv~~~~skL------s~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTL  369 (559)
T KOG1155|consen  297 DDMDLYSNVLYVKNDKSKL------SYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTL  369 (559)
T ss_pred             hhHHHHhHHHHHHhhhHHH------HHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHH
Confidence            1566888777543322222      22222111111344677788888888899999999999999987655 6778998


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVR  325 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~  325 (453)
                      +..-|....+...|.+-++..++-. +.|-..|-.+..+|.-.+.+.-|+-.|++..+.  +| |...|.+|.++|.+.+
T Consensus       370 mGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~  446 (559)
T KOG1155|consen  370 MGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLN  446 (559)
T ss_pred             hhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhc
Confidence            9999999999999999999998864 467888999999999999999999999988874  44 6779999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCChhhH--HHHHHHHHhCCCHHH
Q 039177          326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQSSMF--DETICGLCQRGLVRK  399 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~~~~~--~~li~~~~~~g~~~~  399 (453)
                      +.++|++.|......|-. +...+..|.+.|-+.++.++|.+.|++..+.    |...+....  .-|..-+.+.+++++
T Consensus       447 ~~~eAiKCykrai~~~dt-e~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~  525 (559)
T KOG1155|consen  447 RLEEAIKCYKRAILLGDT-EGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDE  525 (559)
T ss_pred             cHHHHHHHHHHHHhcccc-chHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHH
Confidence            999999999998887644 6678899999999999999999998877652    433332222  224455677788888


Q ss_pred             HHHHHHHHh
Q 039177          400 ALELLKQMA  408 (453)
Q Consensus       400 A~~~~~~m~  408 (453)
                      |..+.....
T Consensus       526 As~Ya~~~~  534 (559)
T KOG1155|consen  526 ASYYATLVL  534 (559)
T ss_pred             HHHHHHHHh
Confidence            876655544

>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=2.6e-10  Score=101.36  Aligned_cols=164  Identities=12%  Similarity=0.023  Sum_probs=142.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      .|...+.+-|+-.++.++|...|++.++.+ +.....|+.+..-|....+...|.+-++..++... .|-..|-.|.++|
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p-~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINP-RDYRAWYGLGQAY  408 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCc-hhHHHHhhhhHHH
Confidence            344555566777788999999999999865 34577899999999999999999999999998542 3778999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHH
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  401 (453)
                      .-.+...-|+-.|++..+-.+. |...|.+|.++|.+.++.++|++.|......| ..+...+..|...|-+.++.++|.
T Consensus       409 eim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHH
Confidence            9999999999999999987655 88999999999999999999999999998876 346678999999999999999999


Q ss_pred             HHHHHHhh
Q 039177          402 ELLKQMAD  409 (453)
Q Consensus       402 ~~~~~m~~  409 (453)
                      ..|++..+
T Consensus       487 ~~yek~v~  494 (559)
T KOG1155|consen  487 QYYEKYVE  494 (559)
T ss_pred             HHHHHHHH
Confidence            99888765

>TIGR00540 hemY_coli hemY protein

Probab=99.48  E-value=6.9e-10  Score=104.47  Aligned_cols=290  Identities=9%  Similarity=-0.030  Sum_probs=199.8

Q ss_pred             CCCcHHHHHHHHHHHHHCCCccChH-hHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh--hhHHHHHHHHHhcCCh
Q 039177          146 RINRVGFAIEILNCMINDGFCVDGK-TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM--VDYTNVIRSLVKKEKV  222 (453)
Q Consensus       146 ~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~~~~~g~~  222 (453)
                      ..|+++.|.+.+....+.  .|+.. .+-....+....|+.  +.+.+.+.+..+..  |+.  ...-.....+...|++
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~--~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~  169 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDE--ARANQHLEEAAELA--GNDNILVEIARTRILLAQNEL  169 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCH
Confidence            356666666666555543  35433 334445667777888  99999999987654  443  3444468888999999


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH---HhcCCHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL---CKQNNVEAGIKMI  299 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~---~~~~~~~~a~~~~  299 (453)
                      +.|.+.++.+.+..+. +...+..+...+...|++++|.+.+..+.+.+..++......-..++   ...+..+++.+.+
T Consensus       170 ~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L  248 (409)
T TIGR00540       170 HAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGL  248 (409)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHH
Confidence            9999999999998655 77788899999999999999999999999987543332222222222   2333333344455


Q ss_pred             HHHHHCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          300 ACMEELGS---KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTY-SIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       300 ~~m~~~~~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ..+.+...   +.+...+..+...+...|+.++|.+++++..+.........+ ..........++.+.+.+.++...+.
T Consensus       249 ~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       249 LNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            55554321   137788999999999999999999999999997544222111 12222234457888999999888765


Q ss_pred             CCCCCh--hhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchh--cchhhHHHHHHHHHHh
Q 039177          376 GLCTQS--SMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV--SKLDFVNTSFIRLVDQ  443 (453)
Q Consensus       376 ~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~--~~~~~~~~~~~~~~~~  443 (453)
                      . +-+.  ....++...+.+.|++++|.+.|+........|+...+..+-..+.  ++.+.+.+.+.+-...
T Consensus       329 ~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       329 V-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             C-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3 2233  4566888899999999999999996444466899988887766664  4444444555554443

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=99.45  E-value=3.4e-09  Score=92.90  Aligned_cols=294  Identities=12%  Similarity=0.013  Sum_probs=209.0

Q ss_pred             HHHHHHh--cCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHC
Q 039177           86 VIKTLAE--NSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIND  163 (453)
Q Consensus        86 ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~  163 (453)
                      +..++.+  .|++..|+++...-.+..  +-....|..-.++.-..|+.+.|-..+.++.+                  .
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~--e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae------------------~  147 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHG--EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAE------------------L  147 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcC--cchHHHHHHHHHHHHhcccHHHHHHHHHHHhc------------------c
Confidence            3444443  688888888888866552  23334455555666677888887777766433                  1


Q ss_pred             CCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH--
Q 039177          164 GFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI--  241 (453)
Q Consensus       164 ~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--  241 (453)
                      .-.++...+.+........|+.  ..|..-.+++.+.+ +-+..+......+|.+.|++.....++..|.+.|.--|.  
T Consensus       148 ~~~~~l~v~ltrarlll~~~d~--~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~  224 (400)
T COG3071         148 AGDDTLAVELTRARLLLNRRDY--PAARENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEA  224 (400)
T ss_pred             CCCchHHHHHHHHHHHHhCCCc--hhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHH
Confidence            1133444555666667778887  78888888887776 456777888889999999999999999999888765444  


Q ss_pred             -----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 039177          242 -----VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNT  316 (453)
Q Consensus       242 -----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  316 (453)
                           .+|..++.-....+..+.-...|+..... .+.++..-.+++.-+.++|+.++|.++.++..+.+..|.    -.
T Consensus       225 ~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~  299 (400)
T COG3071         225 ARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LC  299 (400)
T ss_pred             HHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HH
Confidence                 36777777766666666666677766442 234566667788888899999999999988888776555    12


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      ..-.+.+-++...-++..+.-.+.... ++..+..|...|.+.+.+.+|...|+...+.  .|+..+|+.+..+|.+.|+
T Consensus       300 ~~~~~l~~~d~~~l~k~~e~~l~~h~~-~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~  376 (400)
T COG3071         300 RLIPRLRPGDPEPLIKAAEKWLKQHPE-DPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGE  376 (400)
T ss_pred             HHHhhcCCCCchHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCC
Confidence            223445667777777776666655333 4578888889999999999999999866654  6788889999999999999


Q ss_pred             HHHHHHHHHHHhhC
Q 039177          397 VRKALELLKQMADK  410 (453)
Q Consensus       397 ~~~A~~~~~~m~~~  410 (453)
                      ..+|.++.++....
T Consensus       377 ~~~A~~~r~e~L~~  390 (400)
T COG3071         377 PEEAEQVRREALLL  390 (400)
T ss_pred             hHHHHHHHHHHHHH
Confidence            99999888886643

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

Probab=99.45  E-value=2e-09  Score=103.39  Aligned_cols=314  Identities=14%  Similarity=0.056  Sum_probs=231.9

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CCcHH
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------INRVG  151 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~  151 (453)
                      +.+...|++++|.+++..+.+..  +.+...|-.|...|-..|+.+++...+-.....+                .|.++
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHH
Confidence            34444599999999999999885  6678899999999999999999988775443332                67788


Q ss_pred             HHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhH----HHHHHHHHhcCChhHHHH
Q 039177          152 FAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDY----TNVIRSLVKKEKVFDALG  227 (453)
Q Consensus       152 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~----~~li~~~~~~g~~~~a~~  227 (453)
                      +|.-.|.+.++.. +++-..+-.-...|-+.|+.  ..|..-|.++.....+.|..-.    -.+++.|...++-+.|.+
T Consensus       225 qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~--~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  225 QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDL--KRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChH--HHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            8888888887642 33444445556678888988  8999999888887532232222    344566777788888988


Q ss_pred             HHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---------------------------ChhhH
Q 039177          228 ILNQMKSD-GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP---------------------------DVYTY  279 (453)
Q Consensus       228 ~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~---------------------------~~~~~  279 (453)
                      .++..... +-..+...++.++..+.+...++.|......+.....++                           +...+
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            88887763 223356678889999999999999998888776622212                           22221


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKP--DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                       -++-+.......+...-+...+.+....|  +...|.-+..+|...|++.+|+.+|..+......-+...|-.+..+|.
T Consensus       382 -rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 -RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             -hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence             12223444444555555555555555333  456889999999999999999999999998855557889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          358 SKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ..|..++|.+.+++..... +.+...-..|...+.+.|+.++|.+.+..+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            9999999999999998763 3344455667778899999999999999964

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

Probab=99.45  E-value=2.3e-11  Score=115.81  Aligned_cols=89  Identities=16%  Similarity=0.203  Sum_probs=79.8

Q ss_pred             HHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccC
Q 039177           66 SLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKF  145 (453)
Q Consensus        66 ~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  145 (453)
                      .++..+...|+.|+..||..+|.-||..|+.+.|- +|..|... ..+.+..+++.++.....+++.+.+.         
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~k-sLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIK-SLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcc-cccccchhHHHHHhcccccccccCCC---------
Confidence            56777889999999999999999999999999998 99999877 67888899999999999999877653         


Q ss_pred             CCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCC
Q 039177          146 RINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDL  185 (453)
Q Consensus       146 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  185 (453)
                                          .|-..||..|+.+|...|++
T Consensus        80 --------------------ep~aDtyt~Ll~ayr~hGDl   99 (1088)
T KOG4318|consen   80 --------------------EPLADTYTNLLKAYRIHGDL   99 (1088)
T ss_pred             --------------------CCchhHHHHHHHHHHhccch
Confidence                                47888999999999999998

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

Probab=99.44  E-value=6.8e-10  Score=107.26  Aligned_cols=344  Identities=13%  Similarity=0.044  Sum_probs=215.8

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCC----------
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETP-EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRIN----------  148 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~----------  148 (453)
                      ...|=.+.+++-..|+++.|...|-...+..  +.+ +..+--|..+|.+.|+.+.+...|+.+.+...+          
T Consensus       307 aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~  384 (1018)
T KOG2002|consen  307 AESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGC  384 (1018)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHh
Confidence            3456678899999999999999998887663  222 445566889999999999999999987765511          


Q ss_pred             ----------cHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHH----HHHcCCCcChhhHHHHHH
Q 039177          149 ----------RVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQE----MKKLGFCFGMVDYTNVIR  214 (453)
Q Consensus       149 ----------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~----~~~~g~~~~~~~~~~li~  214 (453)
                                ..+.|..++......- +-|...|..+-..+-...-   ...+.++..    +...+-.+.+...|.+..
T Consensus       385 Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~---~~sL~~~~~A~d~L~~~~~~ip~E~LNNvas  460 (1018)
T KOG2002|consen  385 LYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDP---WASLDAYGNALDILESKGKQIPPEVLNNVAS  460 (1018)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcCh---HHHHHHHHHHHHHHHHcCCCCCHHHHHhHHH
Confidence                      2244444444444322 3355566666555544433   333555543    334455577788888888


Q ss_pred             HHHhcCChhHHHHHHHHHHhC---CCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------------
Q 039177          215 SLVKKEKVFDALGILNQMKSD---GIKPDI------VCYTMVLNGVIVQEDYVKAEELFDELLVLG--------------  271 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~---~~~~~~------~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--------------  271 (453)
                      .+...|++.+|...|......   ...+|.      .+--.+....-..++.+.|.+.|..+.+..              
T Consensus       461 lhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~~ma  540 (1018)
T KOG2002|consen  461 LHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLGCMA  540 (1018)
T ss_pred             HHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhhHHH
Confidence            888888888888888877654   122233      222234444445556666666665554431              


Q ss_pred             -------------------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHh--------
Q 039177          272 -------------------LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG-SKPDVITYNTLLQALCK--------  323 (453)
Q Consensus       272 -------------------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~--------  323 (453)
                                         ...++..++.+...|.+...+..|.+-|..+.+.- ..+|..+.-.|.+.|.+        
T Consensus       541 ~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn  620 (1018)
T KOG2002|consen  541 RDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRN  620 (1018)
T ss_pred             HhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccC
Confidence                               02233444444445555555555555444433221 12455555555555432        


Q ss_pred             ----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHH
Q 039177          324 ----VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK  399 (453)
Q Consensus       324 ----~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  399 (453)
                          .+..++|+++|..+++..+. |...-|-+.-.++..|++.+|..+|....+... -+..+|-.+...|..+|++..
T Consensus       621 ~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~  698 (1018)
T KOG2002|consen  621 PEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRL  698 (1018)
T ss_pred             hHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHH
Confidence                24567788888888887666 777777888888888888888888888877642 244456677888888888888


Q ss_pred             HHHHHHHHhh-CCCCCCHHHHHHHHhchhcchh
Q 039177          400 ALELLKQMAD-KDVSPGARVWEALLLSSVSKLD  431 (453)
Q Consensus       400 A~~~~~~m~~-~~~~p~~~~~~~ll~a~~~~~~  431 (453)
                      |+++|+...+ ..-.-+......|-.++...+.
T Consensus       699 AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~  731 (1018)
T KOG2002|consen  699 AIQMYENCLKKFYKKNRSEVLHYLARAWYEAGK  731 (1018)
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhh
Confidence            8888888655 3434456666666666544333

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

Probab=99.44  E-value=5e-10  Score=95.14  Aligned_cols=223  Identities=18%  Similarity=0.166  Sum_probs=183.8

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCCHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI------VCYTMVLNGVIVQEDYVKAE  261 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~------~~~~~ll~~~~~~g~~~~a~  261 (453)
                      ++|.+.|-+|.+.. +.+..+.-+|.+.|.+.|..|.|+++.+.+.+.   ||.      .....|..-|...|-+|.|+
T Consensus        52 dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          52 DKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             chHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            78999999998854 455667789999999999999999999999874   332      24445677888999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          262 ELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV----ITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       262 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                      .+|..+.+.+ ..-......++..|-...++++|+++-+++.+.+-.+..    ..|.-|...+....+.+.|..++...
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            9999998865 345677788999999999999999999999987655442    35677777777888999999999999


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          338 KWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       338 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      .+.+.+ ++..--.+.+.+...|++..|.+.++.+.+.+...-..+...|..+|.+.|+.++...++..+.+..-.++.
T Consensus       207 lqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~  284 (389)
T COG2956         207 LQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADA  284 (389)
T ss_pred             HhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccH
Confidence            988655 555556677889999999999999999999876666778888999999999999999999998865444443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=2.7e-10  Score=98.85  Aligned_cols=202  Identities=14%  Similarity=0.036  Sum_probs=160.1

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI  283 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  283 (453)
                      .....+..+...|...|++++|.+.+++..+.... +...+..+...+...|++++|.+.+++..+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPD-DYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            34566788888999999999999999988876433 56778888888999999999999999888754 34556777788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      ..+...|++++|.+.++...+....+ ....+..+...+...|++++|...+....+.... +...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCH
Confidence            88899999999999999888743222 3456777788889999999999999998887544 566788888899999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          363 IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ++|...+++..+. ...+...+..+...+...|+.++|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999988776 234556666777888888999999988887763

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.

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

Probab=99.43  E-value=1e-10  Score=108.52  Aligned_cols=260  Identities=15%  Similarity=0.078  Sum_probs=198.4

Q ss_pred             HHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC--CCcChhhHHHHHHHHHhcCChhHHHH
Q 039177          150 VGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG--FCFGMVDYTNVIRSLVKKEKVFDALG  227 (453)
Q Consensus       150 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~  227 (453)
                      ..+|+..|.... ..+.-+.++...+.++|-..++.  +++.++|+.+.+..  ..-+..+|.+.+.-+-+.-.    +.
T Consensus       335 ~~~A~~~~~klp-~h~~nt~wvl~q~GrayFEl~~Y--~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~----Ls  407 (638)
T KOG1126|consen  335 CREALNLFEKLP-SHHYNTGWVLSQLGRAYFELIEY--DQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVA----LS  407 (638)
T ss_pred             HHHHHHHHHhhH-HhcCCchHHHHHHHHHHHHHHHH--HHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHH----HH
Confidence            455666666633 23344557788899999999999  99999999998764  12356778777766543322    22


Q ss_pred             HH-HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          228 IL-NQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEEL  305 (453)
Q Consensus       228 ~~-~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  305 (453)
                      ++ +++.+.. +-...+|-++.++|.-.++.+.|++.|++..+..  | ...+|+.+..-+.....+|.|...|+..+..
T Consensus       408 ~Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld--p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~  484 (638)
T KOG1126|consen  408 YLAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD--PRFAYAYTLLGHESIATEEFDKAMKSFRKALGV  484 (638)
T ss_pred             HHHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC--CccchhhhhcCChhhhhHHHHhHHHHHHhhhcC
Confidence            22 2222222 2267899999999999999999999999998854  4 6788998888899999999999999998762


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 039177          306 GSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMF  384 (453)
Q Consensus       306 ~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  384 (453)
                        .|. -..|-.|.-.|.+.++++.|+-.|+...+.++. +.+....+...+-+.|+.|+|++++++....+.+ |+..-
T Consensus       485 --~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~  560 (638)
T KOG1126|consen  485 --DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCK  560 (638)
T ss_pred             --CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhH
Confidence              232 235566778899999999999999999998776 7778888888999999999999999999887644 33333


Q ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhc
Q 039177          385 DETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS  425 (453)
Q Consensus       385 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a  425 (453)
                      -.-+..+...+++++|+..+++++  .+.|+..+-..++.-
T Consensus       561 ~~~~~il~~~~~~~eal~~LEeLk--~~vP~es~v~~llgk  599 (638)
T KOG1126|consen  561 YHRASILFSLGRYVEALQELEELK--ELVPQESSVFALLGK  599 (638)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHH--HhCcchHHHHHHHHH
Confidence            334667778899999999999998  568887777766644

>PRK12370 invasion protein regulator; Provisional

Probab=99.40  E-value=7.7e-10  Score=108.18  Aligned_cols=266  Identities=13%  Similarity=0.071  Sum_probs=183.5

Q ss_pred             ChHhHHHHHHHHHhcCCC---ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHh---------cCChhHHHHHHHHHHhC
Q 039177          168 DGKTCSLILSSVCEQRDL---SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVK---------KEKVFDALGILNQMKSD  235 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~  235 (453)
                      +...|...+.+.......   +.++|...|++..+.. +-+...|..+..+|..         .+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            444566666654332221   1268888888888765 2344556666555442         24478999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHH
Q 039177          236 GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV-ITY  314 (453)
Q Consensus       236 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~  314 (453)
                      ++. +..++..+...+...|++++|...|++.++.+ +.+...+..+...+...|++++|...++...+..  |+. ..+
T Consensus       334 dP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~  409 (553)
T PRK12370        334 DHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAG  409 (553)
T ss_pred             CCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhH
Confidence            655 77888888888889999999999999998865 3346677888888999999999999999998854  443 233


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhC
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQR  394 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  394 (453)
                      ..++..+...|++++|...++++.+....-+...+..+..+|...|+.++|...+.++.... ..+....+.+...|...
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhcc
Confidence            34455567789999999999988776422245567778888889999999999998875542 22233345555566777


Q ss_pred             CCHHHHHHHHHHHhh-CCCCCCHHHHHHHHhchhcchhhHHHHHHHHHH
Q 039177          395 GLVRKALELLKQMAD-KDVSPGARVWEALLLSSVSKLDFVNTSFIRLVD  442 (453)
Q Consensus       395 g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~a~~~~~~~~~~~~~~~~~  442 (453)
                      |  ++|...++.+.+ .+..|....+..++.+..+..+.+.-. .++.+
T Consensus       489 g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~  534 (553)
T PRK12370        489 S--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKN  534 (553)
T ss_pred             H--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhc
Confidence            7  588887877765 344555556666676665555554333 44433

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

Probab=99.40  E-value=2.8e-11  Score=115.29  Aligned_cols=251  Identities=16%  Similarity=0.140  Sum_probs=171.0

Q ss_pred             HHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039177          156 ILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD  235 (453)
Q Consensus       156 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  235 (453)
                      .+-.+...|+.||..||..+|.-||..|++  +.|- +|.-|.-...+.+...++.++.+..+.++.+.+.         
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdi--eaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDI--EAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCC--cccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------
Confidence            345577789999999999999999999999  6666 9999988888888999999999999999988876         


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-------HCCCCCChhhH--------------HHHHHHHHhcCCHHH
Q 039177          236 GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELL-------VLGLVPDVYTY--------------NVYINGLCKQNNVEA  294 (453)
Q Consensus       236 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~-------~~g~~~~~~~~--------------~~li~~~~~~~~~~~  294 (453)
                        .|...||+.|+.+|...||+..-..+=++|.       ..|+-....-+              ...+.-....|.++.
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaq  157 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQ  157 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHH
Confidence              5788899999999999999765222222222       12221111111              111222233334444


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          295 GIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       295 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +.+++..+...... .  ++-.+++-+...  ....+++........-.|+..+|.+++.+-...|+++.|..++.+|.+
T Consensus       158 llkll~~~Pvsa~~-~--p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  158 LLKLLAKVPVSAWN-A--PFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHHhhCCccccc-c--hHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            44444333221100 0  111123332221  223334443333321257888999999988889999999999999999


Q ss_pred             CCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhc
Q 039177          375 KGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVS  428 (453)
Q Consensus       375 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~  428 (453)
                      +|+.....-|..|+-+   .|+..-+..+++-|.+.|+.|+..|+.-.+..|..
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~  283 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLS  283 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhc
Confidence            9988888888888766   77788888888888889999999998887777655

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

Probab=99.38  E-value=2.2e-09  Score=96.23  Aligned_cols=215  Identities=14%  Similarity=0.060  Sum_probs=152.4

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDEL  267 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  267 (453)
                      ..+..-|+..++... .+...|--+..+|.+..+.++..+.|++..+.+.. |..+|..-...+.-.+++++|..=|++.
T Consensus       343 ~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Ka  420 (606)
T KOG0547|consen  343 LGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKA  420 (606)
T ss_pred             hhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHH
Confidence            455556666655541 12223777777888888888888888888877654 6667777677777778888888888888


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC----
Q 039177          268 LVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV----  343 (453)
Q Consensus       268 ~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~----  343 (453)
                      +... +.+...|--+..+..+.+.+++++..|++.++. ++.-+.+|+.....+...+++++|.+.|+..++....    
T Consensus       421 i~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~  498 (606)
T KOG0547|consen  421 ISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLI  498 (606)
T ss_pred             hhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccc
Confidence            7743 234555666666667888899999999888874 4445678888889999999999999999887765222    


Q ss_pred             ---cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          344 ---LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       344 ---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                         +.+.+-.+++..-- .++++.|..++++..+.+.+ ....|..|...-.+.|+.++|+++|++-.
T Consensus       499 ~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  499 IVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             cccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence               11111122222212 37888999999988887633 34458888888899999999999999865

>PRK12370 invasion protein regulator; Provisional

Probab=99.38  E-value=7.8e-10  Score=108.14  Aligned_cols=250  Identities=10%  Similarity=-0.009  Sum_probs=179.8

Q ss_pred             CCcHHHHHHHHHHHHHCCCccCh-HhHHHHHHHHHhc---------CCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039177          147 INRVGFAIEILNCMINDGFCVDG-KTCSLILSSVCEQ---------RDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSL  216 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~---------~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  216 (453)
                      .+..++|+++|++..+.  .|+. ..|..+..++...         ++.  ++|...+++..+.. +-+...+..+...+
T Consensus       274 ~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~--~~A~~~~~~Al~ld-P~~~~a~~~lg~~~  348 (553)
T PRK12370        274 PYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAM--IKAKEHAIKATELD-HNNPQALGLLGLIN  348 (553)
T ss_pred             HHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHH--HHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34567788888888764  4543 3454444443322         224  78999999988876 45677888899999


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHH
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV-YTYNVYINGLCKQNNVEAG  295 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a  295 (453)
                      ...|++++|+..|++..+.++. +...+..+...+...|++++|...+++..+..  |+. ..+..++..+...|++++|
T Consensus       349 ~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA  425 (553)
T PRK12370        349 TIHSEYIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDA  425 (553)
T ss_pred             HHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHH
Confidence            9999999999999999987644 66788888999999999999999999998864  442 2333445557778999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          296 IKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       296 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+++..+....-+...+..+..++...|++++|...+..+...... +....+.+...|...|  +.|...++++.+.
T Consensus       426 ~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        426 IRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEIT-GLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccch-hHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            999999876532224556777888899999999999999987665322 4445566667777777  5888878777654


Q ss_pred             -CCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          376 -GLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       376 -~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                       ...+...-+  +-..|.-.|+.+.+..+ +++.+.
T Consensus       503 ~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        503 EQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             hhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence             112222222  34456667887777766 888765

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

Probab=99.37  E-value=1.6e-08  Score=88.82  Aligned_cols=302  Identities=13%  Similarity=0.008  Sum_probs=228.3

Q ss_pred             HHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHH
Q 039177          137 NLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSL  216 (453)
Q Consensus       137 ~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  216 (453)
                      ...+.+.+...|++..|.++..+-.+.+-.| ...|..-..+.-..|+.  +.+-.++.+..+.--.++...+-+.....
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~--~~an~yL~eaae~~~~~~l~v~ltrarll  163 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDE--DRANRYLAEAAELAGDDTLAVELTRARLL  163 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccH--HHHHHHHHHHhccCCCchHHHHHHHHHHH
Confidence            3344455556788888888887766654332 23455555666677777  89999999888873356777788889999


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-------hhHHHHHHHHHhc
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV-------YTYNVYINGLCKQ  289 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~  289 (453)
                      ...|+++.|..-++++.+.+.. +.........+|.+.|++.....++..+.+.|.-.|.       .+|..+++-....
T Consensus       164 l~~~d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~  242 (400)
T COG3071         164 LNRRDYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDD  242 (400)
T ss_pred             HhCCCchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999999999999988766 6778899999999999999999999999999876654       4577777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          290 NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                      +..+.-...++..... .+-++..-..++.-+.++|+.++|.++..+..+++..|+    -...-.+.+.++...-++..
T Consensus       243 ~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~  317 (400)
T COG3071         243 NGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAA  317 (400)
T ss_pred             ccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHH
Confidence            6666666666666543 445677788899999999999999999999999987766    22233456778888777777


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhhHHHH--HHHHHHhhhcC
Q 039177          370 EEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTS--FIRLVDQILNT  447 (453)
Q Consensus       370 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~~~~--~~~~~~~~~~~  447 (453)
                      ++-.... .-++..+..|-..|.+.+.+.+|.+.|+...  ...|+..+|..+-.++...++...+.  ..+-. .+...
T Consensus       318 e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L-~~~~~  393 (400)
T COG3071         318 EKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRREAL-LLTRQ  393 (400)
T ss_pred             HHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHHHHH-HHhcC
Confidence            7766542 3344778889999999999999999999877  66899999999988886666555433  33332 44445


Q ss_pred             CCCC
Q 039177          448 PCKM  451 (453)
Q Consensus       448 p~~~  451 (453)
                      |..|
T Consensus       394 ~~~~  397 (400)
T COG3071         394 PNLP  397 (400)
T ss_pred             CCCc
Confidence            5443

>PF13041 PPR_2: PPR repeat family

Probab=99.37  E-value=1.6e-12  Score=82.01  Aligned_cols=49  Identities=35%  Similarity=0.608  Sum_probs=26.0

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  252 (453)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4455555555555555555555555555555555555555555555544

>PF13041 PPR_2: PPR repeat family

Probab=99.36  E-value=2.4e-12  Score=81.20  Aligned_cols=47  Identities=47%  Similarity=0.772  Sum_probs=18.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 039177          310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~  356 (453)
                      |..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.||++|
T Consensus         2 ~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~   48 (50)
T PF13041_consen    2 DVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL   48 (50)
T ss_pred             chHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            33344444444444444444444444444444444444444444333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=2e-09  Score=93.34  Aligned_cols=201  Identities=10%  Similarity=-0.029  Sum_probs=167.1

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      ....+..+...+...|+.  ++|.+.+++..+.. +.+...+..+...|...|++++|.+.+++..+.... +...+..+
T Consensus        30 ~~~~~~~la~~~~~~~~~--~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~  105 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDL--EVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNY  105 (234)
T ss_pred             HHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHH
Confidence            345677788889999998  99999999988765 445778889999999999999999999999887544 66778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGL-VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE  326 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  326 (453)
                      ...+...|++++|.+.++....... ......+..+...+...|++++|...+....+... .+...+..+...+...|+
T Consensus       106 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       106 GTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHHHcCC
Confidence            8999999999999999999987432 22345667788889999999999999999988542 246678889999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       327 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +++|...+++..+.. ..+...+..+...+...|+.++|..+++.+..
T Consensus       185 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       185 YKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999999998873 34667777888899999999999999888754

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.

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

Probab=99.32  E-value=2.6e-07  Score=86.13  Aligned_cols=351  Identities=11%  Similarity=0.044  Sum_probs=266.0

Q ss_pred             HHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCC--CCHHHHHHHHHHHHhcCChhHHHHHHhhcccC
Q 039177           68 LHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFE--TPEFIFIDLIKTYADAHRFQDSVNLFYKIPKF  145 (453)
Q Consensus        68 l~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  145 (453)
                      +..+..-|+..+...|-.-..+|-..|..-....+.....-- |+.  .-..+|+.-.+.|.+.+.++-|+.+|....+.
T Consensus       467 l~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigi-gvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv  545 (913)
T KOG0495|consen  467 LSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGI-GVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV  545 (913)
T ss_pred             HHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhh-ccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh
Confidence            445667789999999988888999999988888888877754 332  22458888888999999999999888776553


Q ss_pred             C----------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhH
Q 039177          146 R----------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDY  209 (453)
Q Consensus       146 ~----------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  209 (453)
                      .                .|..+.-..+|++.... ++-....|....+.+...|++  ..|..++.+..+.. +-+..+|
T Consensus       546 fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv--~~ar~il~~af~~~-pnseeiw  621 (913)
T KOG0495|consen  546 FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDV--PAARVILDQAFEAN-PNSEEIW  621 (913)
T ss_pred             ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCc--HHHHHHHHHHHHhC-CCcHHHH
Confidence            3                67777788888888764 233455666777778888998  89999998888775 3477889


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHh
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD-VYTYNVYINGLCK  288 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~  288 (453)
                      -+-++.-..+.+++.|..+|.+....  .|+...|.--+..---.++.++|.+++++.++.  .|+ ...|-.+...+-+
T Consensus       622 laavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~  697 (913)
T KOG0495|consen  622 LAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQ  697 (913)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHH
Confidence            99999999999999999999988875  556666666666666678999999999888874  244 4567777778888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 039177          289 QNNVEAGIKMIACMEELGSKPDV-ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG  367 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  367 (453)
                      .++++.|.+.|..-.+.  -|+. ..|-.|...=-+.|++-.|..+++...-++++ +...|-..|++-.+.|..+.|..
T Consensus       698 ~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~  774 (913)
T KOG0495|consen  698 MENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAEL  774 (913)
T ss_pred             HHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHH
Confidence            88999988888765552  3544 46667777777888999999999999888877 88899999999999999999988


Q ss_pred             HHHHHHHC----CC-------------------------CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC-HH
Q 039177          368 LLEEALNK----GL-------------------------CTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPG-AR  417 (453)
Q Consensus       368 ~~~~m~~~----~~-------------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~  417 (453)
                      +..+..+.    |+                         .-|....-.+...|.....+++|.+.|.+..+  +.|| -.
T Consensus       775 lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk--~d~d~GD  852 (913)
T KOG0495|consen  775 LMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVK--KDPDNGD  852 (913)
T ss_pred             HHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHc--cCCccch
Confidence            87776653    11                         23344444555667777889999999999884  4454 44


Q ss_pred             HHHHHHhchhcchhh
Q 039177          418 VWEALLLSSVSKLDF  432 (453)
Q Consensus       418 ~~~~ll~a~~~~~~~  432 (453)
                      +|.-+..-+..++.+
T Consensus       853 ~wa~fykfel~hG~e  867 (913)
T KOG0495|consen  853 AWAWFYKFELRHGTE  867 (913)
T ss_pred             HHHHHHHHHHHhCCH
Confidence            555566656666643

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

Probab=99.31  E-value=2.2e-08  Score=94.99  Aligned_cols=294  Identities=15%  Similarity=0.074  Sum_probs=204.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCC
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGF  165 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  165 (453)
                      ....+...|+++.|++.++.-.+.  +.............|.+.|+.++|..+|..+.+                  .  
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~------------------r--   67 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELID------------------R--   67 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH------------------H--
Confidence            345668899999999999886654  455567788889999999999999998887443                  3  


Q ss_pred             ccChHhHHHHHHHHH-hc---CCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh-hHHHHHHHHHHhCCCCCC
Q 039177          166 CVDGKTCSLILSSVC-EQ---RDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV-FDALGILNQMKSDGIKPD  240 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~-~~---~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~  240 (453)
                      .|+...|-..+..+. -.   .+-+.+....+++++...-  |.......+.-.+..-..+ ..+..++..+..+|+++ 
T Consensus        68 NPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs-  144 (517)
T PF12569_consen   68 NPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS-  144 (517)
T ss_pred             CCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch-
Confidence            467776665555444 22   1112267778888876653  3322222222222221222 34556667777788663 


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----C----------CCCChh--hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          241 IVCYTMVLNGVIVQEDYVKAEELFDELLVL----G----------LVPDVY--TYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       241 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g----------~~~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                        +|+.+-..|.......-..+++......    +          -.|+..  ++..+...|-..|++++|++..+..++
T Consensus       145 --lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~  222 (517)
T PF12569_consen  145 --LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIE  222 (517)
T ss_pred             --HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence              5666666676666666666666665432    1          123333  345556678899999999999999998


Q ss_pred             CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 039177          305 LGSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSM  383 (453)
Q Consensus       305 ~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  383 (453)
                      .  .|+ +..|..-...+-+.|++.+|.+.++.....+.. |...=+-.+..+.++|++++|.+++......+..|....
T Consensus       223 h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L  299 (517)
T PF12569_consen  223 H--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNL  299 (517)
T ss_pred             c--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCH
Confidence            5  466 568888899999999999999999999998776 888888888999999999999999999887765333322


Q ss_pred             H--------HHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          384 F--------DETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       384 ~--------~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +        .....+|.+.|++..|+..|....+
T Consensus       300 ~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  300 NDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            2        2335688899999888876666543

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 [], [].

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

Probab=99.30  E-value=7.3e-09  Score=100.32  Aligned_cols=325  Identities=12%  Similarity=0.078  Sum_probs=219.1

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHH----HcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIE----KRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAI  154 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~  154 (453)
                      |...|-.+...+- .++...++..|..+.    .. +-.+...+.|.+...+...|.+..|...|.+...          
T Consensus       413 d~~a~l~laql~e-~~d~~~sL~~~~~A~d~L~~~-~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~----------  480 (1018)
T KOG2002|consen  413 DSEAWLELAQLLE-QTDPWASLDAYGNALDILESK-GKQIPPEVLNNVASLHFRLGNIEKALEHFKSALG----------  480 (1018)
T ss_pred             cHHHHHHHHHHHH-hcChHHHHHHHHHHHHHHHHc-CCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhh----------
Confidence            3334443333333 344444454444333    22 3345666777777777777777777777766322          


Q ss_pred             HHHH-HHHH-CCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC-hhhHHHHHHHHHhcCChhHHHHHHHH
Q 039177          155 EILN-CMIN-DGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG-MVDYTNVIRSLVKKEKVFDALGILNQ  231 (453)
Q Consensus       155 ~~~~-~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~  231 (453)
                       ... .+.. .|-.++..+--.+...+-..++.  +.|.++|..+.+..  |+ +..|--++.+....+...+|...+..
T Consensus       481 -~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~--~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~  555 (1018)
T KOG2002|consen  481 -KLLEVANKDEGKSTNLTLKYNLARLLEELHDT--EVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKD  555 (1018)
T ss_pred             -hhhhhcCccccccchhHHHHHHHHHHHhhhhh--hHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHH
Confidence             111 1110 11112222222334444555677  88999999998864  43 33344555455555788899999998


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHh------------cCCHHHHHHH
Q 039177          232 MKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG-LVPDVYTYNVYINGLCK------------QNNVEAGIKM  298 (453)
Q Consensus       232 m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~------------~~~~~~a~~~  298 (453)
                      .....-. +...++.+...+.+...+..|..-|+...+.- ..+|..+.-+|.+.|.+            .+..++|+++
T Consensus       556 ~l~~d~~-np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~  634 (1018)
T KOG2002|consen  556 ALNIDSS-NPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQL  634 (1018)
T ss_pred             HHhcccC-CcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHH
Confidence            8875432 66667777778999999999988777765532 23577776666665543            3457899999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CC
Q 039177          299 IACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK-GL  377 (453)
Q Consensus       299 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~  377 (453)
                      |.++.+... -|...-|.+.-.++..|++.+|..||..+.+.... +..+|-.+..+|..+|++-.|+++|+...+. .-
T Consensus       635 y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~  712 (1018)
T KOG2002|consen  635 YGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYK  712 (1018)
T ss_pred             HHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999988653 37778888999999999999999999999988553 5568889999999999999999999988766 44


Q ss_pred             CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          378 CTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       378 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      ..+..+...|..++.++|.+.+|.+.+.........-....|+..+
T Consensus       713 ~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  713 KNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             cCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            5567788999999999999999999888877543333345555443

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

Probab=99.30  E-value=7.1e-10  Score=94.32  Aligned_cols=234  Identities=11%  Similarity=-0.006  Sum_probs=196.8

Q ss_pred             HHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039177          173 SLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       173 ~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  252 (453)
                      +.+.++|.+.|..  .+|.+.++...+..  |-+.||-.|-++|.+..++..|+.++.+-.+.- +-|+....-+.+.+-
T Consensus       227 ~Q~gkCylrLgm~--r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  227 QQMGKCYLRLGMP--RRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHhcCh--hhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHH
Confidence            5688899999999  89999998887764  778899999999999999999999999988752 224444455777888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRE  332 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  332 (453)
                      ..++.++|.++|+...+.. ..++.....+...|.-.++++-|+..|+.+.+.|+. +...|+.+.-+|.-.+++|-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            8999999999999998864 356777778888899999999999999999999986 88899999999999999999999


Q ss_pred             HHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          333 LVKEMKWKGIVLN--LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       333 ~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      -|......--.|+  ...|-.+-......|++..|.+.|+-....+ .-....++.|...-.+.|++++|..+++...  
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~--  456 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAK--  456 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhh--
Confidence            9998887644444  3578888888888999999999999888775 3355678888888889999999999999987  


Q ss_pred             CCCCCH
Q 039177          411 DVSPGA  416 (453)
Q Consensus       411 ~~~p~~  416 (453)
                      .+.|+.
T Consensus       457 s~~P~m  462 (478)
T KOG1129|consen  457 SVMPDM  462 (478)
T ss_pred             hhCccc
Confidence            445653

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

Probab=99.29  E-value=5.4e-09  Score=92.87  Aligned_cols=178  Identities=13%  Similarity=0.112  Sum_probs=132.0

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          254 QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLREL  333 (453)
Q Consensus       254 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  333 (453)
                      +|++++|.+.|++.+..........||+= -.+-..|++++|++.|-.+... +.-+..+...+.+.|-...+..+|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            37788888888887764433333334432 2467788889998888776542 223666777888888888889999988


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCC
Q 039177          334 VKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       334 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  413 (453)
                      +.+.... +.-|+....-|.+.|-+.|+-..|.+..-+--. -++.+..+..-|..-|....-+++++.+|++..  =+.
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaa--liq  656 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQ  656 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcC
Confidence            8776654 333777888899999999999988887654322 345567777777777778888999999999876  579


Q ss_pred             CCHHHHHHHHhchhcchhhHHHHH
Q 039177          414 PGARVWEALLLSSVSKLDFVNTSF  437 (453)
Q Consensus       414 p~~~~~~~ll~a~~~~~~~~~~~~  437 (453)
                      |+..-|..++..|.++.+.....|
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~  680 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAF  680 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHH
Confidence            999999999999988877776664

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

Probab=99.28  E-value=4.3e-08  Score=94.44  Aligned_cols=328  Identities=10%  Similarity=0.048  Sum_probs=244.3

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------  146 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------  146 (453)
                      .+..+..|-.|...+-..|+.+.+...+-.+..  -.+.|...|-.+.....+.|.++.|+-.|.+..+.+         
T Consensus       169 dp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH--L~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~p~n~~~~~e  246 (895)
T KOG2076|consen  169 DPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH--LNPKDYELWKRLADLSEQLGNINQARYCYSRAIQANPSNWELIYE  246 (895)
T ss_pred             CccchhhHHHHHHHHHHcccHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcchHHHHH
Confidence            445678899999999999999887765543332  346677899999999999999999999999987766         


Q ss_pred             -------CCcHHHHHHHHHHHHHCCCccChHhHH----HHHHHHHhcCCCChHHHHHHHHHHHHc-CCCcChhhHHHHHH
Q 039177          147 -------INRVGFAIEILNCMINDGFCVDGKTCS----LILSSVCEQRDLSSDELLGFVQEMKKL-GFCFGMVDYTNVIR  214 (453)
Q Consensus       147 -------~~~~~~a~~~~~~m~~~~~~p~~~~~~----~ll~~~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~  214 (453)
                             .|....|.+-|.++....-+.|..-+.    .++..+...++.  +.|.+.+...... +-..+...++.++.
T Consensus       247 rs~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~--e~a~~~le~~~s~~~~~~~~ed~ni~ae  324 (895)
T KOG2076|consen  247 RSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER--ERAAKALEGALSKEKDEASLEDLNILAE  324 (895)
T ss_pred             HHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH--HHHHHHHHHHHhhccccccccHHHHHHH
Confidence                   688888999999888753222222222    345556667766  7788877776653 33556677999999


Q ss_pred             HHHhcCChhHHHHHHHHHHhCC---------------------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          215 SLVKKEKVFDALGILNQMKSDG---------------------------IKPDIVCYTMVLNGVIVQEDYVKAEELFDEL  267 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~---------------------------~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  267 (453)
                      .|.+...++.|......+....                           ..++...+. ++-++.+....+....+..-+
T Consensus       325 l~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~r-l~icL~~L~~~e~~e~ll~~l  403 (895)
T KOG2076|consen  325 LFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIR-LMICLVHLKERELLEALLHFL  403 (895)
T ss_pred             HHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHh-HhhhhhcccccchHHHHHHHH
Confidence            9999999999999988887622                           222222211 223444555555555555555


Q ss_pred             HHCC--CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 039177          268 LVLG--LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN  345 (453)
Q Consensus       268 ~~~g--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  345 (453)
                      .+..  +.-+...|.-+..+|...|++.+|..+|..+......-+...|-.+..+|...|.+++|.+.|...+...+. +
T Consensus       404 ~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~-~  482 (895)
T KOG2076|consen  404 VEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPD-N  482 (895)
T ss_pred             HHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-c
Confidence            5555  334567788899999999999999999999998765567789999999999999999999999999988544 5


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH--------CCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          346 LQTYSIMIDGLASKGDIIEACGLLEEALN--------KGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       346 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ...--.|-..+.+.|+.++|.+.++.+..        .+..|...+-......+.+.|+.++=+.....|..
T Consensus       483 ~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  483 LDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             hhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            55666777888999999999999998542        23455566666667788899998886666666654

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

Probab=99.27  E-value=1.2e-08  Score=93.21  Aligned_cols=270  Identities=11%  Similarity=-0.003  Sum_probs=207.5

Q ss_pred             CcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHH
Q 039177          148 NRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALG  227 (453)
Q Consensus       148 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  227 (453)
                      .++++..++++...+. .+++...+..-|.++...|+.  .+...+=..+.+.- |-...+|-++.--|...|+..+|.+
T Consensus       258 c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~--n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARr  333 (611)
T KOG1173|consen  258 CRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKS--NKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARR  333 (611)
T ss_pred             ChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhccc--chHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHH
Confidence            3444444444445542 355666777778888999987  66666656666653 6678889999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          228 ILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS  307 (453)
Q Consensus       228 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  307 (453)
                      .|.+....+.. =...|-.....|.-.|..++|+..+...-+.= +-..--+--+.--|.+.+..+.|.+.|.+....  
T Consensus       334 y~SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai--  409 (611)
T KOG1173|consen  334 YFSKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI--  409 (611)
T ss_pred             HHHHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc--
Confidence            99998765433 34578889999999999999999988775521 111111222334588999999999999998874  


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC----cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 039177          308 KP-DVITYNTLLQALCKVRELNRLRELVKEMKWK--GIV----LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ  380 (453)
Q Consensus       308 ~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~----p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~  380 (453)
                      .| |+..++-+.-..-..+.+.+|..+|+..+..  .+.    -...+++.|..+|.+.+++++|+..+++..... +-+
T Consensus       410 ~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~  488 (611)
T KOG1173|consen  410 APSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKD  488 (611)
T ss_pred             CCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCc
Confidence            34 5667888877778889999999999987732  111    145578999999999999999999999998874 557


Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhc
Q 039177          381 SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVS  428 (453)
Q Consensus       381 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~  428 (453)
                      ..++.++.-.|...|+++.|.+.|.+.+  .+.|+..+...+|.-+..
T Consensus       489 ~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  489 ASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIE  534 (611)
T ss_pred             hhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHH
Confidence            7889999999999999999999999988  889999888888876543

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

Probab=99.24  E-value=5.6e-08  Score=87.09  Aligned_cols=147  Identities=7%  Similarity=0.052  Sum_probs=118.6

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhccc----CC---------
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPK----FR---------  146 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~---------  146 (453)
                      ...|-....-=...+++..|..+|+......  ..+..+|.-.+.+=.++..+..|+.++++...    .+         
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ym  150 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            3334434444445778888999999998764  56778999999999999999999999987433    22         


Q ss_pred             ---CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChh
Q 039177          147 ---INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVF  223 (453)
Q Consensus       147 ---~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  223 (453)
                         .|++..|.++|++..+  ..|+...|.+.++.=.+-..+  +.|..+++...-..  |++.+|--....=-++|...
T Consensus       151 EE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykei--eraR~IYerfV~~H--P~v~~wikyarFE~k~g~~~  224 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEI--ERARSIYERFVLVH--PKVSNWIKYARFEEKHGNVA  224 (677)
T ss_pred             HHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHH--HHHHHHHHHHheec--ccHHHHHHHHHHHHhcCcHH
Confidence               7999999999999886  479999999999999999998  99999999887654  88888888888778888888


Q ss_pred             HHHHHHHHHHh
Q 039177          224 DALGILNQMKS  234 (453)
Q Consensus       224 ~a~~~~~~m~~  234 (453)
                      .|..+|+...+
T Consensus       225 ~aR~VyerAie  235 (677)
T KOG1915|consen  225 LARSVYERAIE  235 (677)
T ss_pred             HHHHHHHHHHH
Confidence            88887777664

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

Probab=99.23  E-value=1.4e-09  Score=92.67  Aligned_cols=230  Identities=12%  Similarity=0.028  Sum_probs=192.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHH
Q 039177          120 IDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKK  199 (453)
Q Consensus       120 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~  199 (453)
                      +-+.++|.+.|.+.+|.+.|..-.                  .  -.|-..||..|-++|.+..+.  ..|+.++.+-.+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL------------------~--q~~~~dTfllLskvY~ridQP--~~AL~~~~~gld  284 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSL------------------T--QFPHPDTFLLLSKVYQRIDQP--ERALLVIGEGLD  284 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHh------------------h--cCCchhHHHHHHHHHHHhccH--HHHHHHHhhhhh
Confidence            567788888899988888876632                  2  257788999999999999998  999999988776


Q ss_pred             cCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH
Q 039177          200 LGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTY  279 (453)
Q Consensus       200 ~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~  279 (453)
                      . ++.++....-+.+.+-..++.++|.++|+...+.... ++.....+...|.-.++++-|+..|+++++.|+ -+...|
T Consensus       285 ~-fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf  361 (478)
T KOG1129|consen  285 S-FPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELF  361 (478)
T ss_pred             c-CCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHH
Confidence            5 3555555667788888999999999999999887543 777777888889999999999999999999996 578888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDV--ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                      +.+.-+|.-.+++|-++-.|......--.|+.  .+|-.+-......|++..|.+.|+..+..+.. +...++.|.-.-.
T Consensus       362 ~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~  440 (478)
T KOG1129|consen  362 CNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAA  440 (478)
T ss_pred             hhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHh
Confidence            88888999999999999999988765444543  46778888888999999999999999988666 7788999998889


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 039177          358 SKGDIIEACGLLEEALNK  375 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~~  375 (453)
                      +.|++++|..+++.....
T Consensus       441 r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  441 RSGDILGARSLLNAAKSV  458 (478)
T ss_pred             hcCchHHHHHHHHHhhhh
Confidence            999999999999988664

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.20  E-value=1.8e-08  Score=94.42  Aligned_cols=245  Identities=13%  Similarity=0.119  Sum_probs=135.6

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHc----CCC-CCCHH-HHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHH
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKR----ENF-ETPEF-IFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFA  153 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a  153 (453)
                      ..+...+...|...|+++.|..++++....    .|. .+... ..+.+...|...+++++|..+|++           |
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~-----------A  267 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEE-----------A  267 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHH-----------H
Confidence            445666889999999999999999988765    221 22222 333466788889999999999877           6


Q ss_pred             HHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----C-CCcChh-hHHHHHHHHHhcCChhHHH
Q 039177          154 IEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----G-FCFGMV-DYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       154 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----g-~~~~~~-~~~~li~~~~~~g~~~~a~  226 (453)
                      +.+++.......+--..+++.|-.+|.+.|++  ++|...++...+.     | ..+.+. .++.+...+...+++++|.
T Consensus       268 L~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf--~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~  345 (508)
T KOG1840|consen  268 LTIREEVFGEDHPAVAATLNNLAVLYYKQGKF--AEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAK  345 (508)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHHhccCCh--HHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHH
Confidence            66666655433333345677777788888888  7777666554432     1 111111 2455566666666666666


Q ss_pred             HHHHHHHhC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC---CChhhHHHHHHHHHhcCCH
Q 039177          227 GILNQMKSD---GIKP----DIVCYTMVLNGVIVQEDYVKAEELFDELLVL----GLV---PDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       227 ~~~~~m~~~---~~~~----~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~---~~~~~~~~li~~~~~~~~~  292 (453)
                      .+++...+.   -+.+    -..+++.|...|...|++++|+++|+..+..    +..   -....++.+...|.+.+..
T Consensus       346 ~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~  425 (508)
T KOG1840|consen  346 KLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKY  425 (508)
T ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhccc
Confidence            666655431   0111    1234555555555555555555555554321    000   1122334444445555555


Q ss_pred             HHHHHHHHHHHH----CCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          293 EAGIKMIACMEE----LGS-KPDV-ITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       293 ~~a~~~~~~m~~----~~~-~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                      ++|.++|.+...    .|. .|++ .+|..|...|.+.|++++|.++.+.+
T Consensus       426 ~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  426 EEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             chHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            555555444321    111 1121 24455555555555555555544443

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

Probab=99.17  E-value=3.2e-06  Score=79.15  Aligned_cols=312  Identities=14%  Similarity=0.052  Sum_probs=189.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhccc----CC---------------
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPK----FR---------------  146 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~---------------  146 (453)
                      +.-++++...++.|..++....+.  ++.+..+|.+-...--..|..+...++.++-..    .+               
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~--iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~  489 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREI--IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEAC  489 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh--CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHH
Confidence            444666777788888888888875  577888888888877788888877777765221    11               


Q ss_pred             --CCcHHHHHHHHHHHHHCCCccC--hHhHHHHHHHHHhcCCCChHHHHHHH----------------------------
Q 039177          147 --INRVGFAIEILNCMINDGFCVD--GKTCSLILSSVCEQRDLSSDELLGFV----------------------------  194 (453)
Q Consensus       147 --~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~~~a~~~~----------------------------  194 (453)
                        .|..--+..+....+..|+.-.  ..||+.--..|.+.+.+  +-+..+|                            
T Consensus       490 e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~--~carAVya~alqvfp~k~slWlra~~~ek~hgt~E  567 (913)
T KOG0495|consen  490 EDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAI--ECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRE  567 (913)
T ss_pred             hhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchH--HHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHH
Confidence              2333334444444444443321  12444444445555444  4444444                            


Q ss_pred             ------HHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          195 ------QEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELL  268 (453)
Q Consensus       195 ------~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  268 (453)
                            ++....- +-....|-...+.+-..|+...|..++....+.... +...|-.-+..-..+..++.|..+|.+..
T Consensus       568 sl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  568 SLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence                  4433332 222333444445555566666666666666665444 55566666666666666667766666665


Q ss_pred             HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 039177          269 VLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVI-TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQ  347 (453)
Q Consensus       269 ~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  347 (453)
                      ..  .|+...|.--+..---.+..++|.+++++..+.  -|+-. .|..+.+.+-+.++++.|...|..-.+.- .-...
T Consensus       646 ~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c-P~~ip  720 (913)
T KOG0495|consen  646 SI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC-PNSIP  720 (913)
T ss_pred             cc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC-CCCch
Confidence            53  355566655555555566667777777666653  34443 56666667777777777777666554442 22455


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .|-.|...--+.|.+..|..++++...++ +-+...|-..|..-.+.|+.+.|..++.+.++
T Consensus       721 LWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  721 LWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             HHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67777776677777777888887776665 34556677777777888888887777666554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.17  E-value=6.9e-08  Score=90.65  Aligned_cols=237  Identities=16%  Similarity=0.105  Sum_probs=168.3

Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----C-CCcChhh-HHHHHHHHHhcCChhHHHHHHHHHHhC-----CC
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----G-FCFGMVD-YTNVIRSLVKKEKVFDALGILNQMKSD-----GI  237 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----g-~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~  237 (453)
                      .+...+...|...|++  +.|..++....+.     | ..|.+.+ .+.+...|...+++++|..+|+++...     |-
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~  277 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRL--EKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGE  277 (508)
T ss_pred             HHHHHHHHHHHHhccH--HHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCC
Confidence            4666788889999999  8999988877654     2 1222222 445777888899999999999988752     21


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCC-CCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHC---
Q 039177          238 --KPDIVCYTMVLNGVIVQEDYVKAEELFDELLV-----LGL-VPDV-YTYNVYINGLCKQNNVEAGIKMIACMEEL---  305 (453)
Q Consensus       238 --~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g~-~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~---  305 (453)
                        +--..+++.|..+|.+.|++++|...++...+     .|. .+.+ ..++.+...|+..+++++|..+++...+.   
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~  357 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLD  357 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHh
Confidence              11334667777789999999988888877643     111 1222 23566777788899999999888765531   


Q ss_pred             CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          306 GSKPD----VITYNTLLQALCKVRELNRLRELVKEMKWK-----G--IVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       306 ~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      -+.++    ..+++.|...|.+.|++++|.++|+.++..     |  ..-....++.|...|.+.++..+|.++|.+...
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            12222    247899999999999999999999987653     1  111245677888889999999989888876543


Q ss_pred             ----CCC--CCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          375 ----KGL--CTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       375 ----~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                          .|.  +-...+|..|...|...|++++|+++.+...
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                222  2234578889999999999999999887765

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

Probab=99.13  E-value=1.1e-07  Score=77.42  Aligned_cols=209  Identities=14%  Similarity=0.009  Sum_probs=170.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLC  287 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  287 (453)
                      +...|.-.|.+.|+...|.+-+++..+..+. +..+|..+...|.+.|+.+.|.+-|+..++.. +-+-.+.|..-..+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs-~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPS-YYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            3556778899999999999999999988655 77889999999999999999999999988854 345667788888889


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          288 KQNNVEAGIKMIACMEELGSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       288 ~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      ..|++++|...|+.....-.-+. ..+|..+.-+..+.|+.+.|...|+..++.... ...+.-.+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHHH
Confidence            99999999999999887533232 458888888888999999999999999988655 5567778888888999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 039177          367 GLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEAL  422 (453)
Q Consensus       367 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  422 (453)
                      .+++.....+. ++.......|..-...|+.+.+-++=.++..  .-|...-|..+
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r--~fP~s~e~q~f  246 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQR--LFPYSEEYQTF  246 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHhH
Confidence            99999987764 7877777778888889999988887777663  35665555544

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

Probab=99.09  E-value=7.6e-07  Score=78.67  Aligned_cols=306  Identities=12%  Similarity=0.067  Sum_probs=205.5

Q ss_pred             CCCChhhHHHHHHHHHh--cCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHH
Q 039177           76 CEPPPEAYHFVIKTLAE--NSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFA  153 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a  153 (453)
                      ++|.-.+...-+.+++.  .++...+...+-.+.....++.|+.....+.+.|...|+.++|+..|++....        
T Consensus       190 ~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--------  261 (564)
T KOG1174|consen  190 VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--------  261 (564)
T ss_pred             cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--------
Confidence            44445555555665555  56666777777777766678999999999999999999999999999985432        


Q ss_pred             HHHHHHHHHCCCccCh----HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHH
Q 039177          154 IEILNCMINDGFCVDG----KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGIL  229 (453)
Q Consensus       154 ~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  229 (453)
                                  .|+.    ..|..|+   ...|+.  +....+...+.... .-+...|-.-.......+++..|+.+-
T Consensus       262 ------------dpy~i~~MD~Ya~LL---~~eg~~--e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~  323 (564)
T KOG1174|consen  262 ------------NPDNVEAMDLYAVLL---GQEGGC--EQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFV  323 (564)
T ss_pred             ------------ChhhhhhHHHHHHHH---HhccCH--hhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHH
Confidence                        2222    2343343   344555  44444444444322 223444555556666677888888888


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 039177          230 NQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP  309 (453)
Q Consensus       230 ~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  309 (453)
                      ++..+.+.. +...|-.-...+...|++++|.-.|+...... +.+...|.-++..|...|.+.+|.-+-....+. +.-
T Consensus       324 eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~  400 (564)
T KOG1174|consen  324 EKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQN  400 (564)
T ss_pred             HHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhc
Confidence            877765433 44444444466778888888888888876643 356788888999999999888887766554432 223


Q ss_pred             CHHHHHHHH-HHHHh-cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          310 DVITYNTLL-QALCK-VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       310 ~~~~~~~li-~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                      +..+.+.+. ..|.- -..-++|.++++.-++..+. -....+.+...+...|...+++.++++....  .||....+.|
T Consensus       401 sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~-Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~L  477 (564)
T KOG1174|consen  401 SARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPI-YTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHL  477 (564)
T ss_pred             chhhhhhhcceeeccCchhHHHHHHHHHhhhccCCc-cHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHH
Confidence            444555442 33322 22346788888777665332 3446677777888888889999988887653  6788888888


Q ss_pred             HHHHHhCCCHHHHHHHHHHHhhCCCCCC
Q 039177          388 ICGLCQRGLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       388 i~~~~~~g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      ...+.-.+.+.+|++.|....  .+.|+
T Consensus       478 gd~~~A~Ne~Q~am~~y~~AL--r~dP~  503 (564)
T KOG1174|consen  478 GDIMRAQNEPQKAMEYYYKAL--RQDPK  503 (564)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH--hcCcc
Confidence            888888888899888888877  44554

>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=99.09  E-value=8.2e-07  Score=84.47  Aligned_cols=262  Identities=13%  Similarity=0.106  Sum_probs=185.9

Q ss_pred             HHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh-HhHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Q 039177          122 LIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG-KTCSLILSSVCEQRDLSSDELLGFVQEMKKL  200 (453)
Q Consensus       122 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~  200 (453)
                      ....+...|++++|++.+++...                    .-+|. .........+.+.|+.  ++|..++..+.+.
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~--------------------~I~Dk~~~~E~rA~ll~kLg~~--~eA~~~y~~Li~r   67 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEK--------------------QILDKLAVLEKRAELLLKLGRK--EEAEKIYRELIDR   67 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhh--------------------hCCCHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHH
Confidence            34556778888888888765322                    23444 4556777788999999  9999999999998


Q ss_pred             CCCcChhhHHHHHHHHH-hc-----CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH-HHHHHHHHHHHCCCC
Q 039177          201 GFCFGMVDYTNVIRSLV-KK-----EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYV-KAEELFDELLVLGLV  273 (453)
Q Consensus       201 g~~~~~~~~~~li~~~~-~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~-~a~~~~~~m~~~g~~  273 (453)
                      +  |+...|...+..+. -.     ...+...++++++...-  |.......+.-.+.....+. .+...+..++..|+ 
T Consensus        68 N--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~Kgv-  142 (517)
T PF12569_consen   68 N--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGV-  142 (517)
T ss_pred             C--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCC-
Confidence            7  66666554444443 22     35678888999887764  33333333332233322333 44566667778886 


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----C----------CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          274 PDVYTYNVYINGLCKQNNVEAGIKMIACMEEL----G----------SKPDV--ITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       274 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~----------~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                        +.+|+.+-..|......+-..+++......    +          -.|+.  +++..+.+.|...|++++|+.+++..
T Consensus       143 --PslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~a  220 (517)
T PF12569_consen  143 --PSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKA  220 (517)
T ss_pred             --chHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence              356677777777666666666676665432    1          12333  35567788899999999999999999


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCC
Q 039177          338 KWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSP  414 (453)
Q Consensus       338 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  414 (453)
                      +++.+. .+..|..-.+.|-+.|++.+|.+.++.....+ .-|..+=+..+..+.++|++++|.+++......+..|
T Consensus       221 I~htPt-~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~  295 (517)
T PF12569_consen  221 IEHTPT-LVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDP  295 (517)
T ss_pred             HhcCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCc
Confidence            998544 46788889999999999999999999998886 3466666666788899999999999999998776544

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.08  E-value=3.4e-07  Score=82.14  Aligned_cols=195  Identities=11%  Similarity=-0.064  Sum_probs=100.1

Q ss_pred             hHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039177          171 TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNG  250 (453)
Q Consensus       171 ~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  250 (453)
                      .|..+...+...|+.  ++|...|++..+.. +.+...|+.+...|...|++++|.+.|+...+..+. +..+|..+..+
T Consensus        66 ~~~~~g~~~~~~g~~--~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~  141 (296)
T PRK11189         66 LHYERGVLYDSLGLR--ALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDPT-YNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHCCCH--HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            455555556666666  66666666666654 334556666666666777777777766666654333 44555666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 039177          251 VIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRL  330 (453)
Q Consensus       251 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a  330 (453)
                      +...|++++|.+.|+...+..  |+..........+...++.++|...|....... .|+...+ .+  .....|++..+
T Consensus       142 l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~--~~~~lg~~~~~  215 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NI--VEFYLGKISEE  215 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-HH--HHHHccCCCHH
Confidence            666667777766666666533  322211111222334556666666665443321 2222111 12  12223343332


Q ss_pred             HHHHHHHHHC---CC--Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          331 RELVKEMKWK---GI--VL-NLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       331 ~~~~~~~~~~---~~--~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                       ..+..+.+.   .+  .| ....|..+...+.+.|++++|...|++..+.+
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             233333321   11  00 22355666666666666666666666665544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.08  E-value=2.4e-07  Score=83.10  Aligned_cols=225  Identities=12%  Similarity=-0.066  Sum_probs=159.0

Q ss_pred             HHHHHHHHHHHHcC-CCc--ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          188 DELLGFVQEMKKLG-FCF--GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELF  264 (453)
Q Consensus       188 ~~a~~~~~~~~~~g-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~  264 (453)
                      +.+..-+.++.... ..|  ....|..+...|.+.|+.++|...|++..+..+. +...|+.+...+...|++++|...|
T Consensus        43 e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A~~~~  121 (296)
T PRK11189         43 EVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAAYEAF  121 (296)
T ss_pred             HHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            56666666666532 122  2455888888999999999999999999987654 7889999999999999999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 039177          265 DELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL  344 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  344 (453)
                      +..++.. +-+..+|..+..++...|++++|.+.|+...+..  |+..........+...++.++|...|....... .|
T Consensus       122 ~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~  197 (296)
T PRK11189        122 DSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DK  197 (296)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-Cc
Confidence            9998854 2346677888888999999999999999998854  544322233333456788999999997765442 22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC--C-CChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHH
Q 039177          345 NLQTYSIMIDGLASKGDIIEACGLLEEALNK---GL--C-TQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      +...+ .+.  ....|+.+.+ +.++.+.+.   ..  . .....|..+...+.+.|++++|...|++..+.+ .||..-
T Consensus       198 ~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~~~~e  272 (296)
T PRK11189        198 EQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VYNFVE  272 (296)
T ss_pred             cccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CchHHH
Confidence            32222 222  2335666554 355555432   11  1 123468888999999999999999999998543 235555


Q ss_pred             HHHH
Q 039177          419 WEAL  422 (453)
Q Consensus       419 ~~~l  422 (453)
                      +...
T Consensus       273 ~~~~  276 (296)
T PRK11189        273 HRYA  276 (296)
T ss_pred             HHHH
Confidence            5443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.01  E-value=6.2e-06  Score=78.72  Aligned_cols=359  Identities=13%  Similarity=0.036  Sum_probs=217.9

Q ss_pred             HHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--
Q 039177           69 HSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--  146 (453)
Q Consensus        69 ~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--  146 (453)
                      ..+......-|+..|..+--++...|+++.+.+.|++...-  .-.....|..+--.|..+|.-..|+.+.+.-....  
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~--~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~  389 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF--SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQ  389 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh--hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccC
Confidence            33444556678999999999999999999999999998864  34456789999999999999999999987644332  


Q ss_pred             -----------------CCcHHHHHHHHHHHHH--CCC--ccChHhHHHHHHHHHhcCCCC---------hHHHHHHHHH
Q 039177          147 -----------------INRVGFAIEILNCMIN--DGF--CVDGKTCSLILSSVCEQRDLS---------SDELLGFVQE  196 (453)
Q Consensus       147 -----------------~~~~~~a~~~~~~m~~--~~~--~p~~~~~~~ll~~~~~~~~~~---------~~~a~~~~~~  196 (453)
                                       .+.+++++++-.+...  .+.  ......|..+.-+|...-...         ..++.+.+++
T Consensus       390 ps~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~  469 (799)
T KOG4162|consen  390 PSDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEE  469 (799)
T ss_pred             CCcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHH
Confidence                             4566666666655554  111  123334444444443222111         0456667777


Q ss_pred             HHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC--
Q 039177          197 MKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL-GLV--  273 (453)
Q Consensus       197 ~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~~--  273 (453)
                      ..+.+ +.|..+...+.--|+..++++.|++..++..+.+..-+...|..+.-.+...+++.+|+.+.+..... |..  
T Consensus       470 av~~d-~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~  548 (799)
T KOG4162|consen  470 AVQFD-PTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHV  548 (799)
T ss_pred             HHhcC-CCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhh
Confidence            76654 33444444555667788889999999999988866668888988888888889999998888766542 210  


Q ss_pred             ----------------CChhhHHHHHHHHHh---------cC--------------CHHHHHHHHHHHH--------HCC
Q 039177          274 ----------------PDVYTYNVYINGLCK---------QN--------------NVEAGIKMIACME--------ELG  306 (453)
Q Consensus       274 ----------------~~~~~~~~li~~~~~---------~~--------------~~~~a~~~~~~m~--------~~~  306 (453)
                                      -...|+..++..+-.         .|              +..++......+.        ..|
T Consensus       549 l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~  628 (799)
T KOG4162|consen  549 LMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAG  628 (799)
T ss_pred             hchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcc
Confidence                            011122222222110         00              0001111111100        001


Q ss_pred             -----------CCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          307 -----------SKPD------VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       307 -----------~~p~------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                                 ..|+      ...|......+.+.++.++|...+.+..+..+. ....|......+...|...+|.+.|
T Consensus       629 se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l-~~~~~~~~G~~~~~~~~~~EA~~af  707 (799)
T KOG4162|consen  629 SELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPL-SASVYYLRGLLLEVKGQLEEAKEAF  707 (799)
T ss_pred             cccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchh-hHHHHHHhhHHHHHHHhhHHHHHHH
Confidence                       0122      123556666777777777777666666655332 5556666666777777888888877


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHH--HHHHHhhCCCCCCHHHHHHHHhchhcchhhH
Q 039177          370 EEALNKGLCTQSSMFDETICGLCQRGLVRKALE--LLKQMADKDVSPGARVWEALLLSSVSKLDFV  433 (453)
Q Consensus       370 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~--~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~  433 (453)
                      ......+ +-......++...+.+.|+..-|..  ++.++.+.+ .-+...|..+=..+...||..
T Consensus       708 ~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~  771 (799)
T KOG4162|consen  708 LVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSK  771 (799)
T ss_pred             HHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchH
Confidence            7766543 2233456667777777777666665  777777433 124555555544444444433

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

Probab=99.00  E-value=1.1e-06  Score=80.90  Aligned_cols=285  Identities=11%  Similarity=-0.021  Sum_probs=214.5

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHH
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIE  155 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~  155 (453)
                      ..-++.....-..-|...+++.+..++.+.+.+..  +++...+..-|.++.+.|+..+-..+=.+              
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d--pfh~~~~~~~ia~l~el~~~n~Lf~lsh~--------------  303 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKD--PFHLPCLPLHIACLYELGKSNKLFLLSHK--------------  303 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC--CCCcchHHHHHHHHHHhcccchHHHHHHH--------------
Confidence            33455555566667777888999999999888875  44555666667788887776554333222              


Q ss_pred             HHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039177          156 ILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD  235 (453)
Q Consensus       156 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  235 (453)
                          |.+. .+-.+.+|-++.--|...+..  .+|.+.|....... +.=...|-.....|+-.|..++|+..+...-+.
T Consensus       304 ----LV~~-yP~~a~sW~aVg~YYl~i~k~--seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl  375 (611)
T KOG1173|consen  304 ----LVDL-YPSKALSWFAVGCYYLMIGKY--SEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL  375 (611)
T ss_pred             ----HHHh-CCCCCcchhhHHHHHHHhcCc--HHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh
Confidence                3332 344567899998888888998  99999998876543 122457999999999999999999999887663


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----C-CC
Q 039177          236 --GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL----G-SK  308 (453)
Q Consensus       236 --~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~  308 (453)
                        |.. -+..|  +.--|.+.++++.|.+.|.+..... +.|+...+-+.-.....+.+.+|...|+.....    + -+
T Consensus       376 ~~G~h-lP~LY--lgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~  451 (611)
T KOG1173|consen  376 MPGCH-LPSLY--LGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEK  451 (611)
T ss_pred             ccCCc-chHHH--HHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccc
Confidence              322 11222  3345778899999999999987753 457778888877788889999999999887621    1 01


Q ss_pred             -CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          309 -PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       309 -p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                       .-..+++.|..+|.+.+.+++|+..++..+....+ +..++.++.-.|...|+++.|.+.|.+...  +.|+..+...+
T Consensus       452 ~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k-~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~l  528 (611)
T KOG1173|consen  452 IFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK-DASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISEL  528 (611)
T ss_pred             cchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC-chhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHH
Confidence             13457899999999999999999999999988766 899999999999999999999999998865  57887776666


Q ss_pred             HHHH
Q 039177          388 ICGL  391 (453)
Q Consensus       388 i~~~  391 (453)
                      +..+
T Consensus       529 L~~a  532 (611)
T KOG1173|consen  529 LKLA  532 (611)
T ss_pred             HHHH
Confidence            6543

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

Probab=98.98  E-value=3.8e-06  Score=78.09  Aligned_cols=304  Identities=10%  Similarity=-0.089  Sum_probs=181.0

Q ss_pred             hhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCH-HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHH
Q 039177           81 EAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPE-FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNC  159 (453)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~  159 (453)
                      ..|..+...+...|+.+.+...+....+......+. .........+...|++++|...+++.                 
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~-----------------   69 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQL-----------------   69 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHH-----------------
Confidence            345556666667788888877777766553222232 22222334456678888887777663                 


Q ss_pred             HHHCCCccC-hHhHHHHHHHHHh----cCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          160 MINDGFCVD-GKTCSLILSSVCE----QRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       160 m~~~~~~p~-~~~~~~ll~~~~~----~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                       ...  .|+ ...+.. ...+..    .+..  ..+.+.+.. .....+........+...+...|++++|.+.+++..+
T Consensus        70 -l~~--~P~~~~a~~~-~~~~~~~~~~~~~~--~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~  142 (355)
T cd05804          70 -LDD--YPRDLLALKL-HLGAFGLGDFSGMR--DHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALE  142 (355)
T ss_pred             -HHH--CCCcHHHHHH-hHHHHHhcccccCc--hhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             322  233 333332 112222    3333  445554443 1111222334455667788999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC
Q 039177          235 DGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-VPDV--YTYNVYINGLCKQNNVEAGIKMIACMEELGS-KPD  310 (453)
Q Consensus       235 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~  310 (453)
                      .... +...+..+...+...|++++|...+++...... .++.  ..|..+...+...|+.++|..+++....... .+.
T Consensus       143 ~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~  221 (355)
T cd05804         143 LNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDP  221 (355)
T ss_pred             hCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCCh
Confidence            7544 567788888999999999999999999877432 1222  3455678889999999999999999865332 112


Q ss_pred             HHHH-H--HHHHHHHhcCCHHHHHHH---HHHHHHCCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----
Q 039177          311 VITY-N--TLLQALCKVRELNRLREL---VKEMKWKGI-VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLC-----  378 (453)
Q Consensus       311 ~~~~-~--~li~~~~~~~~~~~a~~~---~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-----  378 (453)
                      .... +  .++.-+...|..+.+.+.   ......... ............++...|+.+.|..+++.+......     
T Consensus       222 ~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~  301 (355)
T cd05804         222 ALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNK  301 (355)
T ss_pred             HHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchh
Confidence            2111 1  233333444443333332   111111101 111222235677788899999999999988664221     


Q ss_pred             -C--ChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          379 -T--QSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       379 -~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                       .  ..........++...|+.++|.+.+.....
T Consensus       302 ~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         302 QPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             hhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             1  111122223345688999999999988764

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.

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

Probab=98.97  E-value=9.2e-07  Score=72.24  Aligned_cols=199  Identities=13%  Similarity=-0.046  Sum_probs=157.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      +..-|.-.|...|+...|..-+++.++.. +.+..+|..+...|.+.|+.+.|.+.|+...+.... +..+.|.....+|
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FLC  114 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHHH
Confidence            34456778999999999999999999865 345678899999999999999999999999985422 4568899999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHH
Q 039177          323 KVRELNRLRELVKEMKWKGI-VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  401 (453)
                      ..|++++|...|+....... .--..+|..+.-+..+.|+.+.|...|++..+.+ .-.......+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            99999999999999988732 2234689999999999999999999999998875 334455677888899999999999


Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHhchhcchh--hHHHHHHHHHHhhh
Q 039177          402 ELLKQMADKDVSPGARVWEALLLSSVSKLD--FVNTSFIRLVDQIL  445 (453)
Q Consensus       402 ~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~--~~~~~~~~~~~~~~  445 (453)
                      .+++.....+. ++..+....|..-..-+|  .+...-..+...++
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP  238 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFP  238 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            99999887655 888877776665433333  33333334444433

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

Probab=98.96  E-value=2.3e-05  Score=70.87  Aligned_cols=347  Identities=13%  Similarity=0.126  Sum_probs=223.4

Q ss_pred             chHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhh
Q 039177           62 HILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYK  141 (453)
Q Consensus        62 ~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  141 (453)
                      ..+..++...  ....|+...|.+.|+.=.+-+..+.|..+|+...-.   .|++..|......=-++|.+..|..+|+.
T Consensus       158 ~gaRqiferW--~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~---HP~v~~wikyarFE~k~g~~~~aR~Vyer  232 (677)
T KOG1915|consen  158 AGARQIFERW--MEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV---HPKVSNWIKYARFEEKHGNVALARSVYER  232 (677)
T ss_pred             HHHHHHHHHH--HcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee---cccHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            3344445443  247899999999999999999999999999999854   79999999999999999999999999987


Q ss_pred             cccCC-------------------CCcHHHHHHHHHHHHHCCCccC--hHhHHHHHHHHHhcCCCCh-HHHHH-----HH
Q 039177          142 IPKFR-------------------INRVGFAIEILNCMINDGFCVD--GKTCSLILSSVCEQRDLSS-DELLG-----FV  194 (453)
Q Consensus       142 ~~~~~-------------------~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~-~~a~~-----~~  194 (453)
                      ..+.-                   ...++.|.-+|.-.+.. ++-+  ...|..+...=-+-|+... +.+.-     -+
T Consensus       233 Aie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qY  311 (677)
T KOG1915|consen  233 AIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQY  311 (677)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHH
Confidence            55432                   34444555555554442 2222  2344444443334444311 22211     22


Q ss_pred             HHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH-------HHHHHHHHHH---HhcCCHHHHHHHH
Q 039177          195 QEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI-------VCYTMVLNGV---IVQEDYVKAEELF  264 (453)
Q Consensus       195 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-------~~~~~ll~~~---~~~g~~~~a~~~~  264 (453)
                      +.+.+.+ +.|-.+|-..++.--..|+.+...++|++.... ++|-.       ..|-.+=-++   ....+.+.+.++|
T Consensus       312 E~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vy  389 (677)
T KOG1915|consen  312 EKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVY  389 (677)
T ss_pred             HHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            3344433 566777778888777888888888888888764 33311       1222221222   2456778888888


Q ss_pred             HHHHHCCCCCChhhHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          265 DELLVLGLVPDVYTYNVYINGL----CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~----~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ...++. ++....||.-+=-.|    .++.++..|.+++...+  |..|-..+|...|..=.+.+++|....+++..++.
T Consensus       390 q~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~  466 (677)
T KOG1915|consen  390 QACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEF  466 (677)
T ss_pred             HHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            877762 333455555443333    35667777777777665  35577777777777777778888888888877777


Q ss_pred             CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHH
Q 039177          341 GIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG-LCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVW  419 (453)
Q Consensus       341 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  419 (453)
                      ++. |..+|......-...|+.+.|..+|+-..... +......|...|..-...|.+++|..+++++++.  .+...+|
T Consensus       467 ~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvW  543 (677)
T KOG1915|consen  467 SPE-NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVW  543 (677)
T ss_pred             ChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHH
Confidence            666 66777777776677778888888887776542 2222334555555556777777777777777753  3333344


Q ss_pred             HHH
Q 039177          420 EAL  422 (453)
Q Consensus       420 ~~l  422 (453)
                      .++
T Consensus       544 isF  546 (677)
T KOG1915|consen  544 ISF  546 (677)
T ss_pred             HhH
Confidence            443

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

Probab=98.91  E-value=4.8e-07  Score=81.63  Aligned_cols=219  Identities=14%  Similarity=0.080  Sum_probs=173.3

Q ss_pred             CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHH
Q 039177          147 INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  226 (453)
                      .|+...|.+.|+..+.....++. .|-.+..+|....+-  .+..+.|+...+.+ +-+..+|..-..++.-.+++++|.
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~--~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQS--EKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhcc--HHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHH
Confidence            56777777777777765433332 266667778888887  89999999988876 567788888888888899999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      .-|++.....+. ++..|--+.-+..+.+.+++++..|++..+. ++..+..|+.....+...+++++|.+.|+..++..
T Consensus       415 aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  415 ADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            999999987544 6677777777778899999999999998774 55667889999999999999999999999988742


Q ss_pred             CCCC-------H--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          307 SKPD-------V--ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       307 ~~p~-------~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                        |+       .  .+--.++..= =.+++..|..++....+.+++ ....|..|...-.+.|++++|+++|++-...
T Consensus       493 --~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  493 --PREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             --cccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence              33       1  1111122111 238999999999999998777 6778999999999999999999999987543

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=1.7e-06  Score=73.27  Aligned_cols=279  Identities=14%  Similarity=0.110  Sum_probs=183.3

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-------------
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-------------  146 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------  146 (453)
                      .--+++++..+.+..++++|++++..-.++.  +.+..-...|..+|-...++..|...|+.+-...             
T Consensus        10 EGeftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   10 EGEFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQS   87 (459)
T ss_pred             CCchHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHH
Confidence            3346677777888888888888888877763  4466777788888888888888888888765433             


Q ss_pred             ---CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHH--HhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC
Q 039177          147 ---INRVGFAIEILNCMINDGFCVDGKTCSLILSSV--CEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK  221 (453)
Q Consensus       147 ---~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  221 (453)
                         .+.+..|+.+...|...   ++...-..-+.+.  ...+++  ..+..+.++....|   +..+.+.......+.|+
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl--~g~rsLveQlp~en---~Ad~~in~gCllykegq  159 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDL--PGSRSLVEQLPSEN---EADGQINLGCLLYKEGQ  159 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccC--cchHHHHHhccCCC---ccchhccchheeecccc
Confidence               45666666666655432   2222222222222  234455  66666666655433   45555666666778899


Q ss_pred             hhHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-------------Ch-----------
Q 039177          222 VFDALGILNQMKSD-GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP-------------DV-----------  276 (453)
Q Consensus       222 ~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~-------------~~-----------  276 (453)
                      ++.|++-|+...+- |.. ....|+..+..| +.|+.+.|++...+++++|+..             |+           
T Consensus       160 yEaAvqkFqaAlqvsGyq-pllAYniALaHy-~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~  237 (459)
T KOG4340|consen  160 YEAAVQKFQAALQVSGYQ-PLLAYNLALAHY-SSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQ  237 (459)
T ss_pred             HHHHHHHHHHHHhhcCCC-chhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHH
Confidence            99999999998875 555 556788666544 5689999999999998877532             11           


Q ss_pred             ----hhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 039177          277 ----YTYNVYINGLCKQNNVEAGIKMIACMEEL-GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSI  351 (453)
Q Consensus       277 ----~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  351 (453)
                          ..+|.-...+.+.++.+.|.+.+-.|.-. ....|++|...+.-.- -.+++.+..+-+.-+...++- ...||..
T Consensus       238 Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~ETFAN  315 (459)
T KOG4340|consen  238 SALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPETFAN  315 (459)
T ss_pred             HHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChHHHHH
Confidence                11233333456788888888888877532 2345666666553322 234455555556666666553 4568888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHH
Q 039177          352 MIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~m  372 (453)
                      ++-.||++.-++.|-.++.+-
T Consensus       316 lLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  316 LLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HHHHHhhhHHHhHHHHHHhhC
Confidence            888899988888888877643

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

Probab=98.90  E-value=3.4e-05  Score=72.36  Aligned_cols=289  Identities=8%  Similarity=0.044  Sum_probs=163.1

Q ss_pred             CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--------
Q 039177           75 NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--------  146 (453)
Q Consensus        75 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------  146 (453)
                      .+.-....|...+......+-++.+.++|++..+-   .|  ..-+.-|..+++.+++++|.+.+..+...+        
T Consensus       133 pvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~---~P--~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gk  207 (835)
T KOG2047|consen  133 PVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV---AP--EAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGK  207 (835)
T ss_pred             chHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc---CH--HHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhccc
Confidence            34445566777777777788888888888888754   23  346777888888888888888888776544        


Q ss_pred             -------------CCcHH-----HHHHHHHHHHHCCCccCh--HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh
Q 039177          147 -------------INRVG-----FAIEILNCMINDGFCVDG--KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM  206 (453)
Q Consensus       147 -------------~~~~~-----~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~  206 (453)
                                   ..+.+     ....+++.+..  .-+|.  ..|++|..-|.+.|.+  +.|.+++++....-  .++
T Consensus       208 Sn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~--ekarDvyeeai~~v--~tv  281 (835)
T KOG2047|consen  208 SNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLF--EKARDVYEEAIQTV--MTV  281 (835)
T ss_pred             chhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhh--HHHHHHHHHHHHhh--eeh
Confidence                         00000     11112222211  12332  3567777777777777  77777777665542  233


Q ss_pred             hhHHHHHHHHHhcC----------------------ChhHHHHHHHHHHhCCC-----------CCCHHHHHHHHHHHHh
Q 039177          207 VDYTNVIRSLVKKE----------------------KVFDALGILNQMKSDGI-----------KPDIVCYTMVLNGVIV  253 (453)
Q Consensus       207 ~~~~~li~~~~~~g----------------------~~~~a~~~~~~m~~~~~-----------~~~~~~~~~ll~~~~~  253 (453)
                      .-+..+-++|+...                      +++-.+.-|+.+.....           +-++..|..-..  ..
T Consensus       282 rDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~  359 (835)
T KOG2047|consen  282 RDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LY  359 (835)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hh
Confidence            33444444443221                      11222223333332210           002222222211  12


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc
Q 039177          254 QEDYVKAEELFDELLVLGLVP------DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD---VITYNTLLQALCKV  324 (453)
Q Consensus       254 ~g~~~~a~~~~~~m~~~g~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~  324 (453)
                      .|+..+....|.+..+. +.|      -...|..+...|-..|+++.|..+|++..+...+--   ..+|.....+=.+.
T Consensus       360 e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh  438 (835)
T KOG2047|consen  360 EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRH  438 (835)
T ss_pred             cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhh
Confidence            35555666666666542 122      234577778888888999999999888877544321   23555555566677


Q ss_pred             CCHHHHHHHHHHHHHCCCC----------c-------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          325 RELNRLRELVKEMKWKGIV----------L-------NLQTYSIMIDGLASKGDIIEACGLLEEALNKGL  377 (453)
Q Consensus       325 ~~~~~a~~~~~~~~~~~~~----------p-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  377 (453)
                      .+++.|+++.+......-.          |       +...|...++.--..|-++....+++++.+..+
T Consensus       439 ~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  439 ENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             hhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc
Confidence            7788888877765432111          1       344556666666667777777777777766543

>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=98.87  E-value=1.2e-07  Score=83.79  Aligned_cols=228  Identities=18%  Similarity=0.116  Sum_probs=151.6

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-CHHHHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKP-DIVCYTMV  247 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~l  247 (453)
                      ......+.+++...|..  +.+   ..++.+.. .|.......+...+...++-+.++.-+++........ +.......
T Consensus        35 ~e~~~~~~Rs~iAlg~~--~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~  108 (290)
T PF04733_consen   35 LERDFYQYRSYIALGQY--DSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLA  108 (290)
T ss_dssp             HHHHHHHHHHHHHTT-H--HHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCh--hHH---HHHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHH
Confidence            34556677788888876  433   34444443 5666666555554444355566666665554443332 33332233


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----h
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC----K  323 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~----~  323 (453)
                      ...+...|++++|++++...      .+.......+..|.+.+++|.|.+.++.|.+.+  .|. +...+..++.    .
T Consensus       109 A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g  179 (290)
T PF04733_consen  109 ATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATG  179 (290)
T ss_dssp             HHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhC
Confidence            34566779999999887642      456777788899999999999999999998753  443 4444544443    3


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH-HHHHH
Q 039177          324 VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV-RKALE  402 (453)
Q Consensus       324 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~  402 (453)
                      .+.+.+|..+|+++... ..++..+.+.+..++...|++++|.+++++..+.+ .-+..+...+|......|+. +.+.+
T Consensus       180 ~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~  257 (290)
T PF04733_consen  180 GEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAER  257 (290)
T ss_dssp             TTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             chhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHH
Confidence            45799999999998765 55688899999999999999999999999987665 33566677778888888887 67788


Q ss_pred             HHHHHhhCCCCCC
Q 039177          403 LLKQMADKDVSPG  415 (453)
Q Consensus       403 ~~~~m~~~~~~p~  415 (453)
                      ++.++..  ..|+
T Consensus       258 ~l~qL~~--~~p~  268 (290)
T PF04733_consen  258 YLSQLKQ--SNPN  268 (290)
T ss_dssp             HHHHCHH--HTTT
T ss_pred             HHHHHHH--hCCC
Confidence            8888874  3555

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.86  E-value=3.7e-05  Score=71.44  Aligned_cols=115  Identities=13%  Similarity=0.010  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH--------HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCC-
Q 039177          312 ITYNTLLQALCKVRELNRLRELVK--------EMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK--GLCTQ-  380 (453)
Q Consensus       312 ~~~~~li~~~~~~~~~~~a~~~~~--------~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~~~-  380 (453)
                      .+.-..++.....|+++.|.+++.        .+.+.+..|.  +...++..|.+.++-+.|..++.+....  .-.+. 
T Consensus       377 ~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s  454 (652)
T KOG2376|consen  377 VVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGS  454 (652)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccc
Confidence            344555666778899999999888        5555555444  5556777777877777777777766542  01111 


Q ss_pred             ---hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcc
Q 039177          381 ---SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSK  429 (453)
Q Consensus       381 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~  429 (453)
                         ..++..+...-.+.|+.++|..+++++.+. -.+|..+...++.+|+.-
T Consensus       455 ~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~-n~~d~~~l~~lV~a~~~~  505 (652)
T KOG2376|consen  455 IALLSLMREAAEFKLRHGNEEEASSLLEELVKF-NPNDTDLLVQLVTAYARL  505 (652)
T ss_pred             hHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHh-CCchHHHHHHHHHHHHhc
Confidence               223333344456779999999999999863 356788888899888543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.84  E-value=2.7e-05  Score=67.75  Aligned_cols=59  Identities=10%  Similarity=0.157  Sum_probs=48.4

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR  146 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  146 (453)
                      +...+.+.|++++|...|..+...+  .++..++..|.-++.-.|.+.+|..+-++.++..
T Consensus        63 ia~C~fhLgdY~~Al~~Y~~~~~~~--~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~p  121 (557)
T KOG3785|consen   63 IAHCYFHLGDYEEALNVYTFLMNKD--DAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTP  121 (557)
T ss_pred             HHHHHHhhccHHHHHHHHHHHhccC--CCCcccchhHHHHHHHHHHHHHHHHHHhhCCCCh
Confidence            4445567999999999999998864  6777888888888888899999999888877654

>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=98.83  E-value=1.6e-07  Score=83.06  Aligned_cols=251  Identities=10%  Similarity=0.013  Sum_probs=161.1

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV  167 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p  167 (453)
                      +...-.|++..++.-.+ .... .-..+.....-+.++|...|+.+.++.-.   ..                   +-.|
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~-~~~~~~e~~~~~~Rs~iAlg~~~~vl~ei---~~-------------------~~~~   64 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSF-SPENKLERDFYQYRSYIALGQYDSVLSEI---KK-------------------SSSP   64 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTS-TCHHHHHHHHHHHHHHHHTT-HHHHHHHS----T-------------------TSSC
T ss_pred             HHHHHhhhHHHHHHHhh-ccCC-CchhHHHHHHHHHHHHHHcCChhHHHHHh---cc-------------------CCCh
Confidence            44556788887776555 2222 11223445666788899999877654422   11                   2245


Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCC-cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFC-FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM  246 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (453)
                      .......+.. |..... ..+.+..-+.+....... .+..........+...|++++|+++++.-      .+......
T Consensus        65 ~l~av~~la~-y~~~~~-~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   65 ELQAVRLLAE-YLSSPS-DKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             CCHHHHHHHH-HHCTST-THHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             hHHHHHHHHH-HHhCcc-chHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            5554444433 333322 114444433333322222 22233333345666789999999988653      26777788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLC----KQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      .+..|.+.++++.|.+.++.|.+.+  .| .+...+..++.    ..+.+.+|..+|+++.+. ..++..+.+.+..+..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l  212 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHL  212 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHH
Confidence            8999999999999999999998743  33 34444444443    344789999999998764 5678889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHC
Q 039177          323 KVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI-IEACGLLEEALNK  375 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~  375 (453)
                      ..|++++|..++.+....+.. +..+...+|.+....|+. +.+.+++..+...
T Consensus       213 ~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  213 QLGHYEEAEELLEEALEKDPN-DPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999999999999998877655 677888888888888888 6678888888765

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.

>PF12854 PPR_1: PPR repeat

Probab=98.79  E-value=8.8e-09  Score=58.24  Aligned_cols=29  Identities=34%  Similarity=0.570  Sum_probs=11.4

Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          343 VLNLQTYSIMIDGLASKGDIIEACGLLEE  371 (453)
Q Consensus       343 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~  371 (453)
                      .||..||+.||.+|++.|++++|.++|++
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            33333333333333333333333333333

>PF12854 PPR_1: PPR repeat

Probab=98.75  E-value=1.4e-08  Score=57.39  Aligned_cols=34  Identities=29%  Similarity=0.566  Sum_probs=32.2

Q ss_pred             CCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          375 KGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       375 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      +|+.||..+|+.||.+|++.|++++|.++|++|.
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            4789999999999999999999999999999984

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.74  E-value=0.00016  Score=66.69  Aligned_cols=151  Identities=18%  Similarity=0.160  Sum_probs=106.6

Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          257 YVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVK  335 (453)
Q Consensus       257 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~  335 (453)
                      .+....++++++..-..--..+|...|+.-.+..-++.|..+|.+..+.+..+ ++.++++++.-||. ++..-|.++|+
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            45555666666553323334567777777777777888888888888877766 66677888877765 56688888888


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh--hhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          336 EMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS--SMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       336 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .-.++--. +..-....++-+...|+-..|..+|++....++.++.  .+|..+|.--..-|+...+.++-+++..
T Consensus       426 LGLkkf~d-~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKKFGD-SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhcCC-ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            76655111 3334456677777788888888888888887555443  5788888877888888888887777653

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

Probab=98.71  E-value=2.5e-06  Score=80.84  Aligned_cols=221  Identities=11%  Similarity=0.018  Sum_probs=176.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHH
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLG  192 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~  192 (453)
                      +|--.+-..+...+.+.|-...|..+|+++                           ..|..++-+|+..|+.  ++|..
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl---------------------------emw~~vi~CY~~lg~~--~kaee  445 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL---------------------------EMWDPVILCYLLLGQH--GKAEE  445 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH---------------------------HHHHHHHHHHHHhccc--chHHH
Confidence            343344556777788888888888888763                           2477788899999987  88888


Q ss_pred             HHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          193 FVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL  272 (453)
Q Consensus       193 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~  272 (453)
                      +..+..+.  +||...|..+.+......-+++|.++++.....       +-..+.....+.+++.++.+.|+.-.+.. 
T Consensus       446 i~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-  515 (777)
T KOG1128|consen  446 INRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-  515 (777)
T ss_pred             HHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-
Confidence            88777763  689999999999999888899999999876432       22333334455799999999999876643 


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 039177          273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV-ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSI  351 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  351 (453)
                      .....+|-..-.+..+.+++..|.+.|.....  ..||. ..||.+-.+|.+.++..+|...+.+..+.+.. +...|..
T Consensus       516 plq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWEN  592 (777)
T KOG1128|consen  516 PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWEN  592 (777)
T ss_pred             ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeec
Confidence            24567788888888899999999999999887  45665 58999999999999999999999999998855 6677888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          352 MIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+....+-|.+++|.+.+..+...
T Consensus       593 ymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  593 YMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHHh
Confidence            888889999999999999887653

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

Probab=98.69  E-value=0.00012  Score=68.01  Aligned_cols=270  Identities=10%  Similarity=-0.024  Sum_probs=164.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhH-HHHHHHHHhcCCCChHHHHHHH
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTC-SLILSSVCEQRDLSSDELLGFV  194 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~~~a~~~~  194 (453)
                      .-.+..+...+...|+.+++...+....+.               ...  .++.... ......+...|+.  +++.+++
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~---------------~~~--~~~~~e~~~~~a~~~~~~g~~--~~A~~~~   66 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQA---------------LAA--RATERERAHVEALSAWIAGDL--PKALALL   66 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHH---------------hcc--CCCHHHHHHHHHHHHHHcCCH--HHHHHHH
Confidence            445556666677777777776655543221               111  1222211 1222335666777  8999999


Q ss_pred             HHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          195 QEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPD-IVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       195 ~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ++..+.. +.+...+.. ...+..    .+..+.+.+.+...  ....|+ ......+...+...|++++|...+++..+
T Consensus        67 ~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~  142 (355)
T cd05804          67 EQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALE  142 (355)
T ss_pred             HHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9988764 344444442 223333    34555555555441  122233 34445566788899999999999999988


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CcC
Q 039177          270 LGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS-KPDV--ITYNTLLQALCKVRELNRLRELVKEMKWKGI-VLN  345 (453)
Q Consensus       270 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~  345 (453)
                      .. +.+...+..+..+|...|++++|...++....... .++.  ..|..+...+...|++++|..+++....... .+.
T Consensus       143 ~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~  221 (355)
T cd05804         143 LN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDP  221 (355)
T ss_pred             hC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCCh
Confidence            65 34566778888899999999999999999887432 1232  3456788899999999999999999865433 122


Q ss_pred             HHHH-H--HHHHHHHhcCCHHHHHHH--HHHHHHCCC--CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          346 LQTY-S--IMIDGLASKGDIIEACGL--LEEALNKGL--CTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       346 ~~~~-~--~li~~~~~~g~~~~A~~~--~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .... +  .++.-+...|..+.+.+.  +........  ............++...|+.++|..+++.+..
T Consensus       222 ~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~  292 (355)
T cd05804         222 ALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKG  292 (355)
T ss_pred             HHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence            2211 1  333344444543333332  111111110  11112223566778899999999999999876

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.

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

Probab=98.68  E-value=0.00022  Score=67.14  Aligned_cols=325  Identities=10%  Similarity=0.060  Sum_probs=210.0

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-------------
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-------------  146 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------------  146 (453)
                      +..|-..+..+.++|++......|+.....-.+.-...+|...+...-..|-++-++.+|++..+..             
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~  181 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAK  181 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            4567777888889999999999999988775555566789999999999999999999999877765             


Q ss_pred             CCcHHHHHHHHHHHHHCC------CccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC--CcC--hhhHHHHHHHH
Q 039177          147 INRVGFAIEILNCMINDG------FCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF--CFG--MVDYTNVIRSL  216 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~--~~~--~~~~~~li~~~  216 (453)
                      .+++++|-+.+...+...      .+-+...|..+-...++..+.  -..+.+ +.+.+.|+  -+|  ...|++|.+-|
T Consensus       182 ~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~--~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYY  258 (835)
T KOG2047|consen  182 SDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDK--VQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYY  258 (835)
T ss_pred             ccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcch--hcccCH-HHHHHhhcccCcHHHHHHHHHHHHHH
Confidence            567777777766665421      233444566655555554443  111211 22333332  123  34599999999


Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----------------------CHHHHHHHHHHHHHCCC--
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE----------------------DYVKAEELFDELLVLGL--  272 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g----------------------~~~~a~~~~~~m~~~g~--  272 (453)
                      .+.|.+++|..+|++....  ..++.-|+.+..+|+.-.                      +++-...-|+.+...+.  
T Consensus       259 Ir~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~  336 (835)
T KOG2047|consen  259 IRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLL  336 (835)
T ss_pred             HHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchH
Confidence            9999999999999998764  234555556666555321                      12233333444333210  


Q ss_pred             ---------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          273 ---------VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD------VITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       273 ---------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                               ..++..|..-+.  ...|+..+...+|.+..+. +.|-      ...|..+...|-..|+++.|..+|+..
T Consensus       337 lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  337 LNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                     123334433332  3456677777888777653 2232      346889999999999999999999999


Q ss_pred             HHCCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----------CCCCCh------hhHHHHHHHHHhCCCH
Q 039177          338 KWKGIVLN---LQTYSIMIDGLASKGDIIEACGLLEEALNK-----------GLCTQS------SMFDETICGLCQRGLV  397 (453)
Q Consensus       338 ~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----------~~~~~~------~~~~~li~~~~~~g~~  397 (453)
                      .+...+--   ..+|..-..+-.++.+++.|.++.+.....           +..+..      .+|...++-.-..|-+
T Consensus       414 ~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtf  493 (835)
T KOG2047|consen  414 TKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTF  493 (835)
T ss_pred             hcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccH
Confidence            88754422   346666667777888999999988876532           111122      2334444444556777


Q ss_pred             HHHHHHHHHHhhCCC
Q 039177          398 RKALELLKQMADKDV  412 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~  412 (453)
                      +....+++++.+..+
T Consensus       494 estk~vYdriidLri  508 (835)
T KOG2047|consen  494 ESTKAVYDRIIDLRI  508 (835)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            777777777766443

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

Probab=98.68  E-value=8.7e-06  Score=82.50  Aligned_cols=209  Identities=11%  Similarity=0.018  Sum_probs=138.7

Q ss_pred             CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 039177          203 CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD-GIKP---DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYT  278 (453)
Q Consensus       203 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~---~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  278 (453)
                      +-+...|-..|....+.+++++|.+++++.... ++.-   -.-.|.++++.-...|.-+...++|++..+..  .....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            334556777777777777788887777777642 1111   12356666666666677777777777777642  23455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHH
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV-LNLQTYSIMIDGLA  357 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~li~~~~  357 (453)
                      |..|...|.+.+..++|-++++.|.+. ..-....|...+..+.+.++-+.|..++.+..+.=++ -......-.++.-.
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            667777777777788888888777764 2235567777777777777777777777777665221 12334455555666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC
Q 039177          358 SKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      +.|+.+.+..+|+...... +--...|+..|+.-.++|+.+.+..+|++....++.|.
T Consensus      1612 k~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence            7778888888887776653 22345677777777777888888888888777777664

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=6.8e-05  Score=62.88  Aligned_cols=172  Identities=11%  Similarity=0.057  Sum_probs=111.5

Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          192 GFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG  271 (453)
Q Consensus       192 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  271 (453)
                      ++.+.+.......+......-...|++.|++++|++..+...      +......=...+.+..+++.|.+.+++|.+. 
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i-  166 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI-  166 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-
Confidence            344444444333343334444566788888888888877622      3334444445566777888888888888763 


Q ss_pred             CCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 039177          272 LVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQ  347 (453)
Q Consensus       272 ~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  347 (453)
                        .+..+.+-|..++.+    .+.+.+|.-+|++|.+. ..|+..+.+....++...|++++|..++++.+.+... ++.
T Consensus       167 --ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpe  242 (299)
T KOG3081|consen  167 --DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPE  242 (299)
T ss_pred             --chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHH
Confidence              455666656555543    45678888888888763 4577888888888888888888888888888887665 566


Q ss_pred             HHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEA-CGLLEEALN  374 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A-~~~~~~m~~  374 (453)
                      +...+|.+-...|...++ .+.+...+.
T Consensus       243 tL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  243 TLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             HHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            666666655556655443 344444443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.66  E-value=8.7e-05  Score=73.16  Aligned_cols=290  Identities=13%  Similarity=0.128  Sum_probs=181.3

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKR-ENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------  146 (453)
                      .||+..+..++++...+-+.+..++++.+.-. +.+.-+...-|.|+-...+.. .....+..+++...+          
T Consensus       982 ~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad-~trVm~YI~rLdnyDa~~ia~iai~ 1060 (1666)
T KOG0985|consen  982 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKAD-RTRVMEYINRLDNYDAPDIAEIAIE 1060 (1666)
T ss_pred             CChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcC-hHHHHHHHHHhccCCchhHHHHHhh
Confidence            46667777788888888888888888887644 234445556666666655544 345555666655544          


Q ss_pred             CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHH
Q 039177          147 INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  226 (453)
                      .+.+++|+.+|....     .+....+.|+.-   .+.+  +.|.++-+..      -...+|..+..+-.+.|.+.+|+
T Consensus      1061 ~~LyEEAF~ifkkf~-----~n~~A~~VLie~---i~~l--dRA~efAe~~------n~p~vWsqlakAQL~~~~v~dAi 1124 (1666)
T KOG0985|consen 1061 NQLYEEAFAIFKKFD-----MNVSAIQVLIEN---IGSL--DRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDAI 1124 (1666)
T ss_pred             hhHHHHHHHHHHHhc-----ccHHHHHHHHHH---hhhH--HHHHHHHHhh------CChHHHHHHHHHHHhcCchHHHH
Confidence            567777888776542     344455555542   3344  5555543332      13567888888888888888888


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      +-|-+.-      |...|.-++....+.|.+++-...+.-..+...+|.+.  +.+|-+|++.+++.+.+++.       
T Consensus      1125 eSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi------- 1189 (1666)
T KOG0985|consen 1125 ESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFI------- 1189 (1666)
T ss_pred             HHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHh-------
Confidence            8775543      67788888888888888888888777666655555444  46778888888877655433       


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHH---------------
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEE---------------  371 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~---------------  371 (453)
                      ..|+....-.+.+-|...|.++.|.-+|..         +.-|..|...+...|++..|...-++               
T Consensus      1190 ~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCv 1260 (1666)
T KOG0985|consen 1190 AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACV 1260 (1666)
T ss_pred             cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHh
Confidence            126666666666666666666666655542         23344444444444444443332222               


Q ss_pred             ---------HHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          372 ---------ALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       372 ---------m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                               |...++.....-...++.-|...|-+++.+.+++.-.
T Consensus      1261 d~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1261 DKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             chhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence                     2122223333445667778888888888888777655

>PLN02789 farnesyltranstransferase

Probab=98.65  E-value=7.4e-05  Score=67.24  Aligned_cols=200  Identities=11%  Similarity=0.024  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH--HHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE-KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY--VKAEELF  264 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~--~~a~~~~  264 (453)
                      ++|+.+.++++... +-+..+|+.--..+...| ++++++..++++.+...+ +..+|+.-...+.+.|+.  +++..++
T Consensus        54 erAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el~~~  131 (320)
T PLN02789         54 PRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKELEFT  131 (320)
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHHHHH
Confidence            56666666655543 223334554444555555 456666666666655444 444555444444444442  4556666


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CC----HHHHHHHHHHH
Q 039177          265 DELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV---RE----LNRLRELVKEM  337 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~----~~~a~~~~~~~  337 (453)
                      +.+++.. .-+..+|+....++...|+++++++.+.++++.+.. +...|+.....+.+.   |.    .++.......+
T Consensus       132 ~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~a  209 (320)
T PLN02789        132 RKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDA  209 (320)
T ss_pred             HHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHH
Confidence            6665543 235566666666666666666666666666665433 344444443333332   21    23455555555


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          338 KWKGIVLNLQTYSIMIDGLASK----GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ  393 (453)
Q Consensus       338 ~~~~~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  393 (453)
                      +...+. |...|+-+...+...    ++..+|...+.+....+ ..+......|+..|+.
T Consensus       210 I~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        210 ILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            555444 556666666666552    23345666666655433 2334445556666654

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

Probab=98.64  E-value=8.7e-05  Score=66.09  Aligned_cols=271  Identities=10%  Similarity=0.002  Sum_probs=160.7

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHH
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIE  155 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~  155 (453)
                      .+-|......+.+.+...|+..+|...|+.....+  +-+........-.+...|+.++.-.+...+....         
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~---------  296 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV---------  296 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh---------
Confidence            44566777888999999999999999999988652  2222223333334456676666555544422210         


Q ss_pred             HHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039177          156 ILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD  235 (453)
Q Consensus       156 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  235 (453)
                                +-+..-|-.-+......++.  ..|+.+-+..++.. +-++..|-.-...+...|+.++|.-.|+.....
T Consensus       297 ----------~~ta~~wfV~~~~l~~~K~~--~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L  363 (564)
T KOG1174|consen  297 ----------KYTASHWFVHAQLLYDEKKF--ERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQML  363 (564)
T ss_pred             ----------hcchhhhhhhhhhhhhhhhH--HHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhc
Confidence                      01111222222233344444  56666655555543 233444444455666777777777777777654


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH-HHHH-hcCCHHHHHHHHHHHHHCCCCCCHH-
Q 039177          236 GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI-NGLC-KQNNVEAGIKMIACMEELGSKPDVI-  312 (453)
Q Consensus       236 ~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li-~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~-  312 (453)
                      .+. +...|.-|+.+|...|.+.+|.-.-+...+. +..+..+.+.+. ..|. ...--++|..+++.-.+  +.|+-. 
T Consensus       364 ap~-rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~  439 (564)
T KOG1174|consen  364 APY-RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTP  439 (564)
T ss_pred             chh-hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHH
Confidence            322 6677777787777777777776655544331 123444444331 2222 22234667777776665  335532 


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      ..+.+...|...|..+++..+++..+..  .||...-+.|.+.+...+.+.+|...|......+
T Consensus       440 AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~d  501 (564)
T KOG1174|consen  440 AVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQD  501 (564)
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            4556666777777777777777766654  5577777777777777777777777777766544

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

Probab=98.64  E-value=3.9e-05  Score=77.98  Aligned_cols=208  Identities=12%  Similarity=0.032  Sum_probs=104.3

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc---ChHhHHHHHHHHHhcCCCChHH
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV---DGKTCSLILSSVCEQRDLSSDE  189 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~ll~~~~~~~~~~~~~  189 (453)
                      |-+...|-..|......++++.|++++++....                 -++.-   -...|.++++.-..-|.-  +.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-----------------IN~REeeEKLNiWiA~lNlEn~yG~e--es 1515 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKT-----------------INFREEEEKLNIWIAYLNLENAYGTE--ES 1515 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-----------------CCcchhHHHHHHHHHHHhHHHhhCcH--HH
Confidence            445667777777777777777777777763321                 00000   011344444443334433  55


Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          190 LLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       190 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ..++|+++.+.-  -...+|..|...|.+.+.+++|.++++.|.+.- .-....|...+..+.+..+-+.|..++.+.++
T Consensus      1516 l~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~ 1592 (1710)
T KOG1070|consen 1516 LKKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALK 1592 (1710)
T ss_pred             HHHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            556666655542  112345556666666666666666666665531 12444555555555555555555555555544


Q ss_pred             CCCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          270 LGLV-PDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV  343 (453)
Q Consensus       270 ~g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  343 (453)
                      .-.+ -......-.+..-.+.|+.+.+..+|+.....-.+ -...|+..|++-.++|+.+.++.+|+++...++.
T Consensus      1593 ~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1593 SLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            2100 01222233333334555555555555555443211 2334555555555555555555555555555443

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

Probab=98.64  E-value=0.00047  Score=65.05  Aligned_cols=322  Identities=15%  Similarity=0.120  Sum_probs=200.7

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----------  146 (453)
                      -+...|+.+.-......++++|+..|....+-+  +.|..++.-+--.-++.|+++.....-..+.+..           
T Consensus        73 ~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~--~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~A  150 (700)
T KOG1156|consen   73 KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE--KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFA  150 (700)
T ss_pred             ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHH
Confidence            445667777777777888899999998888764  6677777776666666666655554443333322           


Q ss_pred             -----CCcHHHHHHHHHHHHHCCC-ccChHhHHHHHH------HHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039177          147 -----INRVGFAIEILNCMINDGF-CVDGKTCSLILS------SVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIR  214 (453)
Q Consensus       147 -----~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~------~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  214 (453)
                           .|++..|..+++....... .|+...|.....      ...+.|..  +.+.+.+..-... +.-....-..-..
T Consensus       151 vs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~--q~ale~L~~~e~~-i~Dkla~~e~ka~  227 (700)
T KOG1156|consen  151 VAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSL--QKALEHLLDNEKQ-IVDKLAFEETKAD  227 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccH--HHHHHHHHhhhhH-HHHHHHHhhhHHH
Confidence                 6888889999888887553 466665544332      23455555  6666554433221 1112223345567


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCHHHHH-HHHHHHH------------------------
Q 039177          215 SLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN-GVIVQEDYVKAE-ELFDELL------------------------  268 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-~~~~~g~~~~a~-~~~~~m~------------------------  268 (453)
                      .+.+.+++++|..++..+...  .||...|.-.+. ++.+..+.-++. .+|....                        
T Consensus       228 l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~  305 (700)
T KOG1156|consen  228 LLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKE  305 (700)
T ss_pred             HHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHH
Confidence            788899999999999999987  456555554443 443233322222 4443332                        


Q ss_pred             ----------HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH----CC----------CCCCH--HHHHHHHHHHH
Q 039177          269 ----------VLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEE----LG----------SKPDV--ITYNTLLQALC  322 (453)
Q Consensus       269 ----------~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~----------~~p~~--~~~~~li~~~~  322 (453)
                                +.|+   +.++..+.+.|-.-...+-..++.-.+..    .|          -.|..  +++-.++..|-
T Consensus       306 ~vdkyL~~~l~Kg~---p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D  382 (700)
T KOG1156|consen  306 IVDKYLRPLLSKGV---PSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYD  382 (700)
T ss_pred             HHHHHHHHHhhcCC---CchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHH
Confidence                      2222   22333333333332222211122111111    11          13444  35566788899


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHH
Q 039177          323 KVRELNRLRELVKEMKWKGIVLNL-QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  401 (453)
                      +.|+++.|...++....+  .|+. ..|..=.+.+...|++++|..++++..+.+ .+|..+-..-..-..++++.++|.
T Consensus       383 ~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~  459 (700)
T KOG1156|consen  383 KLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAE  459 (700)
T ss_pred             HcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHH
Confidence            999999999999998877  3343 345555688899999999999999998876 456554334556667889999999


Q ss_pred             HHHHHHhhCCC
Q 039177          402 ELLKQMADKDV  412 (453)
Q Consensus       402 ~~~~~m~~~~~  412 (453)
                      ++.......|.
T Consensus       460 ~~~skFTr~~~  470 (700)
T KOG1156|consen  460 EVLSKFTREGF  470 (700)
T ss_pred             HHHHHhhhccc
Confidence            99999988775

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.63  E-value=5.1e-06  Score=76.79  Aligned_cols=222  Identities=11%  Similarity=-0.010  Sum_probs=170.6

Q ss_pred             HHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 039177          179 VCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYV  258 (453)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  258 (453)
                      +.+.|++  .+|.-.|+..++.. +-+...|.-|.......++-..|+..+++..+..+. |....-.|.-.|...|.-.
T Consensus       295 lm~nG~L--~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  295 LMKNGDL--SEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHhcCCc--hHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhHH
Confidence            4567777  78888888888776 567889999999999999999999999999987655 7888888889999999999


Q ss_pred             HHHHHHHHHHHCCCC--------CChhhHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          259 KAEELFDELLVLGLV--------PDVYTYNVYINGLCKQNNVEAGIKMIACME-ELGSKPDVITYNTLLQALCKVRELNR  329 (453)
Q Consensus       259 ~a~~~~~~m~~~g~~--------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~-~~~~~p~~~~~~~li~~~~~~~~~~~  329 (453)
                      .|...++.-+....+        ++...-..  ..+.....+....++|-++. ..+..+|..+...|.-.|--.|++++
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            999999887654310        00000000  11222233445556665544 44545788888899889999999999


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ-SSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      |.+.|+..+...+. |..+||-|...++...+..+|+..+++..+.  .|+ +.....|..+|...|.+++|.+.|=..+
T Consensus       449 aiDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  449 AVDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            99999999998766 8899999999999999999999999999886  343 2333445668999999999999887755


Q ss_pred             h
Q 039177          409 D  409 (453)
Q Consensus       409 ~  409 (453)
                      .
T Consensus       526 ~  526 (579)
T KOG1125|consen  526 S  526 (579)
T ss_pred             H
Confidence            3

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=8e-06  Score=69.32  Aligned_cols=92  Identities=9%  Similarity=0.030  Sum_probs=44.7

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH-HHHH
Q 039177          172 CSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM-VLNG  250 (453)
Q Consensus       172 ~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~  250 (453)
                      +.+++..+.+..++  +.+.+++..-.+.. +.+......|..+|....++..|-..++++...  .|...-|.. -...
T Consensus        13 ftaviy~lI~d~ry--~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   13 FTAVVYRLIRDARY--ADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQS   87 (459)
T ss_pred             hHHHHHHHHHHhhH--HHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHH
Confidence            44444444454555  55555555444443 224445555555666666666666666655543  222222221 1223


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 039177          251 VIVQEDYVKAEELFDELL  268 (453)
Q Consensus       251 ~~~~g~~~~a~~~~~~m~  268 (453)
                      +.+.+.+.+|+++...|.
T Consensus        88 LY~A~i~ADALrV~~~~~  105 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLL  105 (459)
T ss_pred             HHHhcccHHHHHHHHHhc
Confidence            344555555555555544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.60  E-value=0.00027  Score=74.46  Aligned_cols=238  Identities=11%  Similarity=0.031  Sum_probs=155.4

Q ss_pred             hHHHHHHHHHhcCCCChHHHHHHHHHHHHc----CC-CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----CCC--C
Q 039177          171 TCSLILSSVCEQRDLSSDELLGFVQEMKKL----GF-CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD----GIK--P  239 (453)
Q Consensus       171 ~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~  239 (453)
                      ..+.+...+...|+.  +++...+++....    |. .....++..+...+...|+++.|...+++....    +..  +
T Consensus       493 a~~~lg~~~~~~G~~--~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~  570 (903)
T PRK04841        493 ATSVLGEVHHCKGEL--ARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLP  570 (903)
T ss_pred             HHHHHHHHHHHcCCH--HHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhcccccc
Confidence            345555667788888  8898888877643    21 111234566777888999999999998887652    211  1


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHH
Q 039177          240 -DIVCYTMVLNGVIVQEDYVKAEELFDELLVLG--LVP--DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVIT  313 (453)
Q Consensus       240 -~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--~~~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~  313 (453)
                       ....+..+...+...|++++|...+.+.....  ..+  ....+..+...+...|+.+.|.+.+.......... ....
T Consensus       571 ~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~  650 (903)
T PRK04841        571 MHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSD  650 (903)
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHh
Confidence             22334455566777899999999998875521  112  23334445667788999999999988875421111 1111


Q ss_pred             H-----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-
Q 039177          314 Y-----NTLLQALCKVRELNRLRELVKEMKWKGIVLN---LQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQ-  380 (453)
Q Consensus       314 ~-----~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~-  380 (453)
                      +     ...+..+...|+.+.|...+...........   ...+..+..++...|+.++|...+++....    |.... 
T Consensus       651 ~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~  730 (903)
T PRK04841        651 WIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDL  730 (903)
T ss_pred             HhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHH
Confidence            1     1123445668899999999877554322111   112346677888999999999999987653    32222 


Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          381 SSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       381 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ..+...+..++.+.|+.++|...+.+..+.
T Consensus       731 a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        731 NRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            234555667888999999999999998864

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.57  E-value=2.3e-05  Score=68.13  Aligned_cols=186  Identities=10%  Similarity=0.043  Sum_probs=126.2

Q ss_pred             CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh---
Q 039177          203 CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK-P-DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVY---  277 (453)
Q Consensus       203 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~---  277 (453)
                      ......+..+...+.+.|++++|...|+++...... | ...++..+..++...|++++|...++++.+..  |+..   
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~  107 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDAD  107 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchH
Confidence            345667888888999999999999999998875332 1 12466778888999999999999999998754  3222   


Q ss_pred             -hHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 039177          278 -TYNVYINGLCKQ--------NNVEAGIKMIACMEELGSKPDVI-TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQ  347 (453)
Q Consensus       278 -~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  347 (453)
                       ++..+..++.+.        |+.++|.+.|+.+.+..  |+.. .+..+.... .   ....      ..        .
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~-~---~~~~------~~--------~  167 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMD-Y---LRNR------LA--------G  167 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHH-H---HHHH------HH--------H
Confidence             344444555544        67888888888888753  4432 222221110 0   0000      00        0


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGL--CTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ....+...|.+.|++.+|...++...+...  ......+..+..++.+.|++++|..+++.+...
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            112455678889999999999999887631  123457778889999999999999998888643

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.57  E-value=1.8e-05  Score=68.70  Aligned_cols=186  Identities=9%  Similarity=-0.060  Sum_probs=130.5

Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC---hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH--
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG---MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI--  241 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--  241 (453)
                      .....+..+...+...|+.  +.|...++++.... +.+   ..++..+..+|.+.|++++|+..++++.+.......  
T Consensus        31 ~~~~~~~~~g~~~~~~~~~--~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~  107 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDY--TEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDAD  107 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchH
Confidence            3556777888889999999  99999999988764 222   246788899999999999999999999886443222  


Q ss_pred             HHHHHHHHHHHhc--------CCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 039177          242 VCYTMVLNGVIVQ--------EDYVKAEELFDELLVLGLVPDV-YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVI  312 (453)
Q Consensus       242 ~~~~~ll~~~~~~--------g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  312 (453)
                      .++..+..++...        |+.++|.+.|+.+.+..  |+. ..+..+... ..   ...      ...        .
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~-~~---~~~------~~~--------~  167 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRM-DY---LRN------RLA--------G  167 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHH-HH---HHH------HHH--------H
Confidence            2455555556554        78899999999998753  443 222222111 00   000      000        0


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGI-VL-NLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ....+...|.+.|++++|...+....+... .| ....+..+..++.+.|++++|..+++.+...
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            112455678899999999999999887633 12 4568889999999999999999998887654

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).

>PLN02789 farnesyltranstransferase

Probab=98.56  E-value=0.00014  Score=65.40  Aligned_cols=216  Identities=7%  Similarity=0.002  Sum_probs=140.4

Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHhhcccCCCCcHHHHHHHHHHHH
Q 039177           83 YHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAH-RFQDSVNLFYKIPKFRINRVGFAIEILNCMI  161 (453)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~  161 (453)
                      +..+-..+...+..++|+.+.+.+.+..  +.+..+|+..-..+...| .+++++..++++                  .
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~------------------i   99 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDV------------------A   99 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHH------------------H
Confidence            3344455666788999999999999874  555667777766666666 467777766663                  3


Q ss_pred             HCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 039177          162 NDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI  241 (453)
Q Consensus       162 ~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  241 (453)
                      ... +-+..+|+.-...+.+.+....+++..+++.+.+.. +-+..+|+.....+...|+++++++.++++.+.++. |.
T Consensus       100 ~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~  176 (320)
T PLN02789        100 EDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NN  176 (320)
T ss_pred             HHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-ch
Confidence            321 224445655444444555421145677777777765 557788888888888889999999999999887766 67


Q ss_pred             HHHHHHHHHHHhc---CCH----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCC
Q 039177          242 VCYTMVLNGVIVQ---EDY----VKAEELFDELLVLGLVPDVYTYNVYINGLCKQ----NNVEAGIKMIACMEELGSKPD  310 (453)
Q Consensus       242 ~~~~~ll~~~~~~---g~~----~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~p~  310 (453)
                      .+|+.....+.+.   |..    +..++...+++... +-|...|+.+...+...    +...+|.+.+.+..+.++ .+
T Consensus       177 sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~-~s  254 (320)
T PLN02789        177 SAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS-NH  254 (320)
T ss_pred             hHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC-Cc
Confidence            7777766655554   222    35566665665543 34667777777777662    334557777766665432 25


Q ss_pred             HHHHHHHHHHHHh
Q 039177          311 VITYNTLLQALCK  323 (453)
Q Consensus       311 ~~~~~~li~~~~~  323 (453)
                      ......|+..|+.
T Consensus       255 ~~al~~l~d~~~~  267 (320)
T PLN02789        255 VFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHHHHHHHHh
Confidence            5567777777764

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.56  E-value=5.4e-05  Score=75.99  Aligned_cols=220  Identities=8%  Similarity=-0.004  Sum_probs=110.4

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      +...+..|+..+...+++++|.++.+...+..  +-....|-.+...|.+.++.+++..+                    
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv--------------------   87 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL--------------------   87 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh--------------------
Confidence            35566777777777888888888877666653  22222333333366666665555443                    


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK  238 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  238 (453)
                                     .++.......++  ..+..+...+.+.+  -+...+..+..+|-+.|+.++|..+|+++.+..+.
T Consensus        88 ---------------~~l~~~~~~~~~--~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~  148 (906)
T PRK14720         88 ---------------NLIDSFSQNLKW--AIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD  148 (906)
T ss_pred             ---------------hhhhhcccccch--hHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc
Confidence                           122222222222  33333333333322  23335555566666666666666666666655533


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC------------
Q 039177          239 PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG------------  306 (453)
Q Consensus       239 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------------  306 (453)
                       |..+.|.+...|... ++++|++++.+....               |...+++..+.+++..+....            
T Consensus       149 -n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~  211 (906)
T PRK14720        149 -NPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIER  211 (906)
T ss_pred             -cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHH
Confidence             555556666555555 666666555555442               333334444444444444322            


Q ss_pred             -------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          307 -------SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       307 -------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                             ...-+.++-.+-..|-..++++++..+++.+++.... |.....-++.+|.
T Consensus       212 ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y~  268 (906)
T PRK14720        212 KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFYK  268 (906)
T ss_pred             HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHHH
Confidence                   1112223333444455555555555555555555433 4444444444443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.55  E-value=3.4e-05  Score=64.48  Aligned_cols=149  Identities=9%  Similarity=0.065  Sum_probs=97.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  292 (453)
                      +..|...|+++.+....+.+...    .        ..+...++.+++...++..++.. +.|...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            44566777776654443222111    0        01222556666666666666544 35677777777778888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCC--HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          293 EAGIKMIACMEELGSKPDVITYNTLLQA-LCKVRE--LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                      ++|...|+...+.... +...+..+..+ +...|+  .++|.+++++..+.+.. +...+..+...+...|++++|+..|
T Consensus        90 ~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            8888888877775422 45566666665 356666  47888888888777666 6677777777777888888888888


Q ss_pred             HHHHHCC
Q 039177          370 EEALNKG  376 (453)
Q Consensus       370 ~~m~~~~  376 (453)
                      +++.+..
T Consensus       168 ~~aL~l~  174 (198)
T PRK10370        168 QKVLDLN  174 (198)
T ss_pred             HHHHhhC
Confidence            8877654

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.53  E-value=3.6e-05  Score=64.34  Aligned_cols=155  Identities=11%  Similarity=0.088  Sum_probs=119.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVREL  327 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  327 (453)
                      +..|...|+++.+......+..    |. .       .+...++.+++...++...+... .|...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCH
Confidence            3568899999887655433221    11 1       12236677888888888777543 4778999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHH-HHhcCC--HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHH
Q 039177          328 NRLRELVKEMKWKGIVLNLQTYSIMIDG-LASKGD--IIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       328 ~~a~~~~~~~~~~~~~p~~~~~~~li~~-~~~~g~--~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                      ++|...|+...+.... +...+..+..+ |...|+  .++|.+++++..+.+ .-+...+..+...+.+.|++++|+..|
T Consensus        90 ~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999998766 78888888886 467777  599999999999886 346677888889999999999999999


Q ss_pred             HHHhhCCCCCCHHH
Q 039177          405 KQMADKDVSPGARV  418 (453)
Q Consensus       405 ~~m~~~~~~p~~~~  418 (453)
                      +++.+. ..|+..-
T Consensus       168 ~~aL~l-~~~~~~r  180 (198)
T PRK10370        168 QKVLDL-NSPRVNR  180 (198)
T ss_pred             HHHHhh-CCCCccH
Confidence            999864 3444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.51  E-value=7.9e-05  Score=71.04  Aligned_cols=57  Identities=14%  Similarity=0.134  Sum_probs=33.7

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhccc
Q 039177           85 FVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPK  144 (453)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  144 (453)
                      +.|+.|.+.|.+..|.+....-.   .+..|..+...+..++.+..-+++|-.+|+++..
T Consensus       620 aaiqlyika~~p~~a~~~a~n~~---~l~~de~il~~ia~alik~elydkagdlfeki~d  676 (1636)
T KOG3616|consen  620 AAIQLYIKAGKPAKAARAALNDE---ELLADEEILEHIAAALIKGELYDKAGDLFEKIHD  676 (1636)
T ss_pred             HHHHHHHHcCCchHHHHhhcCHH---HhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC
Confidence            45667777777776665432221   2345566666666666666666666666666543

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

Probab=98.48  E-value=4.9e-05  Score=72.42  Aligned_cols=213  Identities=14%  Similarity=0.034  Sum_probs=164.4

Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039177          174 LILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV  253 (453)
Q Consensus       174 ~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  253 (453)
                      .+...+...|-.  ..|..+|+.+         ..|.-+|.+|...|+..+|..+..+..++  +||...|..+......
T Consensus       403 ~laell~slGit--ksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d  469 (777)
T KOG1128|consen  403 LLAELLLSLGIT--KSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHD  469 (777)
T ss_pred             HHHHHHHHcchH--HHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccC
Confidence            344556666766  7777777654         45678889999999999999988888773  6788888888877777


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          254 QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLREL  333 (453)
Q Consensus       254 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  333 (453)
                      ..-+++|.++.+..-..       +-..+.....+.++++++.+.|+.-.+.+. ....+|-.+..++.+.++++.|.+.
T Consensus       470 ~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~a  541 (777)
T KOG1128|consen  470 PSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKA  541 (777)
T ss_pred             hHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHH
Confidence            66778888887765331       111222223447889999999988776431 2456888888889999999999999


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          334 VKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       334 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      |.......+. +...||.+-.+|.+.|+-.+|...+.+..+.+..++ .+|...+....+.|.+++|++.+.++.+
T Consensus       542 F~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w-~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  542 FHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHW-QIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCC-eeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9988877554 678999999999999999999999999998875444 4466667778899999999999999876

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.45  E-value=1.7e-05  Score=62.65  Aligned_cols=101  Identities=12%  Similarity=-0.030  Sum_probs=56.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          316 TLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       316 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      .+...+.+.|++++|...|+......+. +...|..+..++...|++++|...|+.....+ ..+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            3445555566666666666665555433 55555666666666666666666666665543 234445555555566666


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHH
Q 039177          396 LVRKALELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       396 ~~~~A~~~~~~m~~~~~~p~~~~~~  420 (453)
                      ++++|+..|+...  .+.|+...+.
T Consensus       107 ~~~eAi~~~~~Al--~~~p~~~~~~  129 (144)
T PRK15359        107 EPGLAREAFQTAI--KMSYADASWS  129 (144)
T ss_pred             CHHHHHHHHHHHH--HhCCCChHHH
Confidence            6666666666655  2344443333

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.44  E-value=0.0005  Score=60.15  Aligned_cols=207  Identities=13%  Similarity=0.080  Sum_probs=130.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHHCCCCCChh-hHHHHHH
Q 039177          211 NVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN-----GVIVQEDYVKAEELFDELLVLGLVPDVY-TYNVYIN  284 (453)
Q Consensus       211 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~-----~~~~~g~~~~a~~~~~~m~~~g~~~~~~-~~~~li~  284 (453)
                      .|+--|.+.+++++|..+..++.--  .|-......+..     -........-|.+.|...-+++..-|.. .-.++.+
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~Pt--tP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs  367 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDPT--TPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMAS  367 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCCC--ChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHH
Confidence            4555677888888888877666421  222222111111     1111223455666665554555444433 3455666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH-HHHHHHhcCCHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSI-MIDGLASKGDII  363 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~-li~~~~~~g~~~  363 (453)
                      ++.-..++|+++-.+..+...=..-|...| .+.++++..|++.+|+++|-.+....++ |..+|.+ |.++|.++++++
T Consensus       368 ~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~  445 (557)
T KOG3785|consen  368 YFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQ  445 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCch
Confidence            666677788888887777765333344333 4678999999999999999887766666 6667655 557889999999


Q ss_pred             HHHHHHHHHHHCCCCCChhh-HHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch
Q 039177          364 EACGLLEEALNKGLCTQSSM-FDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSS  426 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~  426 (453)
                      .|+.++-++...   .+... ...+..-|.+++.+--|-+.|+.+.  ...|+...|..=-.||
T Consensus       446 lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE--~lDP~pEnWeGKRGAC  504 (557)
T KOG3785|consen  446 LAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELE--ILDPTPENWEGKRGAC  504 (557)
T ss_pred             HHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHH--ccCCCccccCCccchH
Confidence            999888665322   22222 3344567888899888888898887  4567777775444444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.44  E-value=0.00025  Score=68.62  Aligned_cols=48  Identities=4%  Similarity=0.072  Sum_probs=32.4

Q ss_pred             HHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhccc
Q 039177           90 LAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPK  144 (453)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  144 (453)
                      |.-.|+.+.|.+-+..+.       +..+|..|.+++.+..++|-|.-.+-.|..
T Consensus       738 yvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~  785 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKN  785 (1416)
T ss_pred             EEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhh
Confidence            444666666665555443       334888888888888888888777766654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.43  E-value=0.00029  Score=70.94  Aligned_cols=135  Identities=13%  Similarity=0.080  Sum_probs=98.3

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      +...+-.+..+|.+.|+.  +++..+++++.+.. +-|+.+.|.+...|... ++++|++++.+....            
T Consensus       115 ~k~Al~~LA~~Ydk~g~~--~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~------------  178 (906)
T PRK14720        115 NKLALRTLAEAYAKLNEN--KKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR------------  178 (906)
T ss_pred             hhHHHHHHHHHHHHcCCh--HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH------------
Confidence            444677788888889988  89999999999887 66788899999999988 999999988877653            


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC-------------------CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          248 LNGVIVQEDYVKAEELFDELLVL-------------------GLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSK  308 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~-------------------g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  308 (453)
                         +...+++..+.++|.++...                   |..--..++-.+-..|-..++++++..+++.+.+...+
T Consensus       179 ---~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~  255 (906)
T PRK14720        179 ---FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK  255 (906)
T ss_pred             ---HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc
Confidence               33344445555555444432                   22233445555667788889999999999999986533


Q ss_pred             CCHHHHHHHHHHHH
Q 039177          309 PDVITYNTLLQALC  322 (453)
Q Consensus       309 p~~~~~~~li~~~~  322 (453)
                       |.....-++.+|.
T Consensus       256 -n~~a~~~l~~~y~  268 (906)
T PRK14720        256 -NNKAREELIRFYK  268 (906)
T ss_pred             -chhhHHHHHHHHH
Confidence             5567777777776

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.42  E-value=3.2e-05  Score=71.74  Aligned_cols=198  Identities=13%  Similarity=0.065  Sum_probs=152.5

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  292 (453)
                      ..-+.+.|++.+|.-.|+...++.+. +...|..|......+++-..|+..+.+.++.. +-+....-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            34466889999999999999988766 88999999999999999999999999998864 24566777777789999999


Q ss_pred             HHHHHHHHHHHHCCCC--------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhcCCHH
Q 039177          293 EAGIKMIACMEELGSK--------PDVITYNTLLQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSIMIDGLASKGDII  363 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~~--------p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~  363 (453)
                      ..|...++..+....+        ++...-..  ..+.....+....++|-++... +..+|..+...|.-.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999999988764311        00000000  1222223345556666666554 54578888899999999999999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHH
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGAR  417 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  417 (453)
                      +|...|+...... +-|..+||.|-..++...+.++|++.|++.+  .+.|+.+
T Consensus       448 raiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rAL--qLqP~yV  498 (579)
T KOG1125|consen  448 RAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRAL--QLQPGYV  498 (579)
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHH--hcCCCee
Confidence            9999999998764 4466789999999999999999999999998  5677743

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.42  E-value=0.0021  Score=67.91  Aligned_cols=283  Identities=11%  Similarity=-0.003  Sum_probs=172.8

Q ss_pred             HHHhcCChhHHHHHHhhcccCC-----------------CCcHHHHHHHHHHHHHC--CC----ccChH--hHHHHHHHH
Q 039177          125 TYADAHRFQDSVNLFYKIPKFR-----------------INRVGFAIEILNCMIND--GF----CVDGK--TCSLILSSV  179 (453)
Q Consensus       125 ~~~~~g~~~~A~~~~~~~~~~~-----------------~~~~~~a~~~~~~m~~~--~~----~p~~~--~~~~ll~~~  179 (453)
                      .....|+++.+..+++.++...                 .++++++..++......  ..    .+...  ....+-..+
T Consensus       383 ~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~  462 (903)
T PRK04841        383 SLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVA  462 (903)
T ss_pred             HHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHH
Confidence            3445677777777777664211                 67788888887766542  10    11111  122223344


Q ss_pred             HhcCCCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhC----CC-CCCHHHHHHHHHH
Q 039177          180 CEQRDLSSDELLGFVQEMKKLGFCFG----MVDYTNVIRSLVKKEKVFDALGILNQMKSD----GI-KPDIVCYTMVLNG  250 (453)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~  250 (453)
                      ...|++  +.+...+++....--..+    ....+.+...+...|++++|...+++....    |. .....++..+...
T Consensus       463 ~~~g~~--~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~  540 (903)
T PRK04841        463 INDGDP--EEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEI  540 (903)
T ss_pred             HhCCCH--HHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHH
Confidence            567777  889888888765311111    134566677788899999999998888642    11 1112344556667


Q ss_pred             HHhcCCHHHHHHHHHHHHH----CCCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCC--HHHHHHHHH
Q 039177          251 VIVQEDYVKAEELFDELLV----LGLV--P-DVYTYNVYINGLCKQNNVEAGIKMIACMEELG--SKPD--VITYNTLLQ  319 (453)
Q Consensus       251 ~~~~g~~~~a~~~~~~m~~----~g~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~--~~~~~~li~  319 (453)
                      +...|+++.|...+++...    .+..  + ....+..+...+...|++++|...+.+.....  ..+.  ...+..+..
T Consensus       541 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  620 (903)
T PRK04841        541 LFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAK  620 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHH
Confidence            8889999999998887654    2211  1 12234445556777899999999888765421  1122  234555667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC--CCcCHH--HH--HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---hhhHHHHHHH
Q 039177          320 ALCKVRELNRLRELVKEMKWKG--IVLNLQ--TY--SIMIDGLASKGDIIEACGLLEEALNKGLCTQ---SSMFDETICG  390 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~--~~p~~~--~~--~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~---~~~~~~li~~  390 (453)
                      .+...|++++|...+.......  ......  ..  ...+..+...|+.+.|..++...........   ...+..+..+
T Consensus       621 ~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        621 ISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHH
Confidence            7788999999999888875431  111111  00  1122445568899999998876543221111   1113456677


Q ss_pred             HHhCCCHHHHHHHHHHHhh
Q 039177          391 LCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       391 ~~~~g~~~~A~~~~~~m~~  409 (453)
                      +...|++++|...+++...
T Consensus       701 ~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        701 QILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            8899999999999998765

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.41  E-value=5.2e-05  Score=63.54  Aligned_cols=89  Identities=17%  Similarity=0.112  Sum_probs=33.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      .+....+.|++..|...+.+..... .+|...|+.+.-+|.+.|+.+.|..-|.+..+.... +...++.|...|.-.|+
T Consensus       106 ~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd  183 (257)
T COG5010         106 QGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGD  183 (257)
T ss_pred             HHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCC
Confidence            3333333444444444433333321 123333343334444444444444443333333222 22233333333333344


Q ss_pred             HHHHHHHHHHH
Q 039177          362 IIEACGLLEEA  372 (453)
Q Consensus       362 ~~~A~~~~~~m  372 (453)
                      .+.|..++...
T Consensus       184 ~~~A~~lll~a  194 (257)
T COG5010         184 LEDAETLLLPA  194 (257)
T ss_pred             HHHHHHHHHHH
Confidence            44444444333

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.39  E-value=0.00015  Score=60.86  Aligned_cols=165  Identities=14%  Similarity=0.068  Sum_probs=136.6

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      |..+ ..+-..+...|+-+....+.........+ |.......+....+.|++..|+..+.+..... ++|..+|+.+--
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~~-d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAYPK-DRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccCcc-cHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            3444 66777888888888888888776554333 66667778899999999999999999988754 689999999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      +|.+.|+.++|..-|.+..+.-. -+...++.+.-.|.-.|+++.|..++......+.. |...-..+.......|++++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~  220 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFRE  220 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHH
Confidence            99999999999999999988532 25667899999999999999999999999888665 77788888888999999999


Q ss_pred             HHHHHHHHHH
Q 039177          365 ACGLLEEALN  374 (453)
Q Consensus       365 A~~~~~~m~~  374 (453)
                      |..+...-..
T Consensus       221 A~~i~~~e~~  230 (257)
T COG5010         221 AEDIAVQELL  230 (257)
T ss_pred             HHhhcccccc
Confidence            9998765433

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.38  E-value=0.00028  Score=70.22  Aligned_cols=162  Identities=10%  Similarity=0.070  Sum_probs=125.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHH
Q 039177          238 KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD-VITYNT  316 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~  316 (453)
                      ..++..+..|.....+.|.+++|+.+++...+.. +-+......+...+.+.+++++|....++.....  |+ ......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHHHHH
Confidence            3468888889999999999999999999998853 2345567778888999999999999999998854  54 456777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      +..++.+.|++++|..+|+++...+.. +..++..+..++-..|+.++|...|++..+.. .+....|+..+      ++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p~-~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~------~~  231 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHPE-FENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH------HH
Confidence            778888999999999999999985444 57888899999999999999999999987763 33444555444      34


Q ss_pred             HHHHHHHHHHHhhC
Q 039177          397 VRKALELLKQMADK  410 (453)
Q Consensus       397 ~~~A~~~~~~m~~~  410 (453)
                      ...-..+++++.-.
T Consensus       232 ~~~~~~~~~~~~~~  245 (694)
T PRK15179        232 LNADLAALRRLGVE  245 (694)
T ss_pred             HHHHHHHHHHcCcc
Confidence            45556667776543

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.36  E-value=0.0014  Score=57.27  Aligned_cols=283  Identities=9%  Similarity=-0.006  Sum_probs=176.2

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CC
Q 039177           85 FVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------IN  148 (453)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~  148 (453)
                      -+.+.+...|.+.+|+..|.....-  -+.+-..+-.-...|...|+-..|+.=++++.+..                .|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcc
Confidence            3556666667777777777666643  12222222233444555565555555444443322                56


Q ss_pred             cHHHHHHHHHHHHHCCCc------------cC--hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHH
Q 039177          149 RVGFAIEILNCMINDGFC------------VD--GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIR  214 (453)
Q Consensus       149 ~~~~a~~~~~~m~~~~~~------------p~--~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  214 (453)
                      .++.|..-|+..+...-.            +-  .......+..+...|+.  ..++.....+.+.. +-|...|..-..
T Consensus       121 ele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~--~~ai~~i~~llEi~-~Wda~l~~~Rak  197 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDC--QNAIEMITHLLEIQ-PWDASLRQARAK  197 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCch--hhHHHHHHHHHhcC-cchhHHHHHHHH
Confidence            666666666666553210            00  11223344455566666  78888888887764 557777888888


Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH------------
Q 039177          215 SLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVY------------  282 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l------------  282 (453)
                      +|...|++..|+.-++...+..-. +..++--+-..+...|+.+.++...++.++.  .||...+-..            
T Consensus       198 c~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~le  274 (504)
T KOG0624|consen  198 CYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLE  274 (504)
T ss_pred             HHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHH
Confidence            899999999888877776654333 4555556677778889988888888888774  3654432111            


Q ss_pred             -HHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 039177          283 -INGLCKQNNVEAGIKMIACMEELGSKPDV---ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS  358 (453)
Q Consensus       283 -i~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  358 (453)
                       +......+++-++.+-.+...+.......   ..+..+-.+|...+++.+|++.-.+++..... |+.++.--..+|.-
T Consensus       275 s~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~-dv~~l~dRAeA~l~  353 (504)
T KOG0624|consen  275 SAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPD-DVQVLCDRAEAYLG  353 (504)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCch-HHHHHHHHHHHHhh
Confidence             11233455666666666666654422112   23455666777788899999888888876433 57777777788888


Q ss_pred             cCCHHHHHHHHHHHHHCC
Q 039177          359 KGDIIEACGLLEEALNKG  376 (453)
Q Consensus       359 ~g~~~~A~~~~~~m~~~~  376 (453)
                      ...+|+|+.=|+...+.+
T Consensus       354 dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  354 DEMYDDAIHDYEKALELN  371 (504)
T ss_pred             hHHHHHHHHHHHHHHhcC
Confidence            888888888888887654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.36  E-value=0.00042  Score=68.97  Aligned_cols=164  Identities=11%  Similarity=0.007  Sum_probs=128.4

Q ss_pred             CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          202 FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV  281 (453)
Q Consensus       202 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~  281 (453)
                      .+.+...+-.|.....+.|.+++|..+++...+..+. +......+...+.+.+++++|+..+++..... +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            3456788889999999999999999999999987444 56677788899999999999999999998865 234556677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      +..++.+.|++++|..+|+++...+. -+..++..+..++-..|+.++|...|+...+.. .+...-|+.++      ++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~------~~  231 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL------VD  231 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH------HH
Confidence            77788999999999999999998432 246789999999999999999999999998762 22445555443      34


Q ss_pred             HHHHHHHHHHHHHC
Q 039177          362 IIEACGLLEEALNK  375 (453)
Q Consensus       362 ~~~A~~~~~~m~~~  375 (453)
                      +..-..+++.+.-.
T Consensus       232 ~~~~~~~~~~~~~~  245 (694)
T PRK15179        232 LNADLAALRRLGVE  245 (694)
T ss_pred             HHHHHHHHHHcCcc
Confidence            55556666666443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.32  E-value=0.0001  Score=58.29  Aligned_cols=91  Identities=7%  Similarity=-0.097  Sum_probs=37.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 039177          212 VIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       212 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  291 (453)
                      +...+...|++++|...|+......+. +...|..+..++...|++++|...|+...... +.+...+..+..++...|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            333444444444444444444433222 33344444444444444444444444444322 1233333334444444444


Q ss_pred             HHHHHHHHHHHHH
Q 039177          292 VEAGIKMIACMEE  304 (453)
Q Consensus       292 ~~~a~~~~~~m~~  304 (453)
                      .++|...|+...+
T Consensus       108 ~~eAi~~~~~Al~  120 (144)
T PRK15359        108 PGLAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHHHH
Confidence            4444444444433

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.31  E-value=1.3e-06  Score=50.06  Aligned_cols=33  Identities=39%  Similarity=0.798  Sum_probs=25.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      +|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            577777777777777777777777777777776

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.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=0.0016  Score=54.98  Aligned_cols=250  Identities=16%  Similarity=0.060  Sum_probs=156.3

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH-HHHHHHHHHhCCCCCCHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD-ALGILNQMKSDGIKPDIVCYTM  246 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~~~~~~~~~~~  246 (453)
                      +...-..+-++|...|..  ..   +..++.... .+.......+......-++.++ .-++.+.+......-+......
T Consensus        40 ~~e~d~y~~raylAlg~~--~~---~~~eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~  113 (299)
T KOG3081|consen   40 DVELDVYMYRAYLALGQY--QI---VISEIKEGK-ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLL  113 (299)
T ss_pred             hhHHHHHHHHHHHHcccc--cc---ccccccccc-CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHH
Confidence            344444555666666665  22   222333222 2222222222222222333333 3345555555544434444444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK---  323 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---  323 (453)
                      -...|++.|++++|++......      +......=+..+.+..+.+.|.+.++.|.+.   -+..|.+.|.++|.+   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhc
Confidence            5567889999999998887621      2333333344567888899999999999983   366788888887765   


Q ss_pred             -cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH-HHHH
Q 039177          324 -VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV-RKAL  401 (453)
Q Consensus       324 -~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~A~  401 (453)
                       .+.+.+|.-+|++|-++ ..|+..+.+-...++...|++++|..++++...+... +..+...+|..-...|.. +-..
T Consensus       185 ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~  262 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTE  262 (299)
T ss_pred             cchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHH
Confidence             45689999999999875 5678889999999999999999999999999988643 455555555555555554 4455


Q ss_pred             HHHHHHhhCCCCCCHHHHHHHHhchhcchhhHHHHHHHHHHhh
Q 039177          402 ELLKQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQI  444 (453)
Q Consensus       402 ~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~~~~~~~~~~~~  444 (453)
                      +.+.+++.  ..|++.        ++.+.+..+.-|++...+.
T Consensus       263 r~l~QLk~--~~p~h~--------~vk~~~ekeaeFDrl~~qy  295 (299)
T KOG3081|consen  263 RNLSQLKL--SHPEHP--------FVKHLNEKEAEFDRLVLQY  295 (299)
T ss_pred             HHHHHHHh--cCCcch--------HHHHHHHHHHHHHHHHHHh
Confidence            66677663  244432        3345555555566665554

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.28  E-value=0.00058  Score=62.51  Aligned_cols=182  Identities=15%  Similarity=0.119  Sum_probs=128.2

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI  283 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  283 (453)
                      |+...+...+........-..+-.++.+..+  ..-...-|..- -.+...|++++|+..+..++..- +-|...+....
T Consensus       272 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~--~~~~aa~YG~A-~~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~  347 (484)
T COG4783         272 PDFQLARARIRAKYEALPNQQAADLLAKRSK--RGGLAAQYGRA-LQTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAG  347 (484)
T ss_pred             ccHHHHHHHHHHHhccccccchHHHHHHHhC--ccchHHHHHHH-HHHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3444455555544444333333333333222  11123334333 34557799999999999987753 34566667777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      ..+.+.++.++|.+.++.+...  .|+ ....-.+.++|.+.|++.+|..+++........ |...|..|.++|...|+.
T Consensus       348 ~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~  424 (484)
T COG4783         348 DILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPE-DPNGWDLLAQAYAELGNR  424 (484)
T ss_pred             HHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCC-CchHHHHHHHHHHHhCch
Confidence            8899999999999999999884  466 456677788999999999999999998888666 888999999999999998


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          363 IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      .+|....                  ..+|...|+++.|+..+....+.
T Consensus       425 ~~a~~A~------------------AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         425 AEALLAR------------------AEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHH------------------HHHHHhCCCHHHHHHHHHHHHHh
Confidence            8776654                  34556678888888888887764

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.28  E-value=0.0016  Score=54.46  Aligned_cols=186  Identities=11%  Similarity=0.018  Sum_probs=107.0

Q ss_pred             CcHHHHHHHHHHHHH---CC-CccChH-hHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh
Q 039177          148 NRVGFAIEILNCMIN---DG-FCVDGK-TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV  222 (453)
Q Consensus       148 ~~~~~a~~~~~~m~~---~~-~~p~~~-~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  222 (453)
                      .+.++.++++..+..   .| ..++.+ .|..++-+....++.  +.|...++++...- +-+..+-..-.-.+-..|++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~--~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRD--DLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcch--HHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhch
Confidence            344445555444443   23 445554 344555555666666  67777777765543 22332222222233445777


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ++|+++++.+.+.++. |.+++--=+...-..|+.-+|++-+....+. +..|...|.-+-..|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~ddpt-~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPT-DTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccCcc-hhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            7777777777776533 5555655555555566666666666666553 4467777777777777777777777777777


Q ss_pred             HHCCCCCCHH-HHHHHHHHHHh---cCCHHHHHHHHHHHHHC
Q 039177          303 EELGSKPDVI-TYNTLLQALCK---VRELNRLRELVKEMKWK  340 (453)
Q Consensus       303 ~~~~~~p~~~-~~~~li~~~~~---~~~~~~a~~~~~~~~~~  340 (453)
                      .-.  .|... .+-.+...+.-   ..++..+.++|...++.
T Consensus       181 ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            663  34333 33344443332   33455667777776665

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.28  E-value=0.0023  Score=55.98  Aligned_cols=286  Identities=10%  Similarity=0.017  Sum_probs=186.6

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CCcHHHHHHHHHHHHHCCCccChHhH-HHHHH
Q 039177          115 PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------INRVGFAIEILNCMINDGFCVDGKTC-SLILS  177 (453)
Q Consensus       115 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~  177 (453)
                      ++.-.-.+...+...|++.+|+.-|....+.+                .|+.+.|+.-+.+.++  .+||-..- ..-..
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~  114 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhch
Confidence            33444455566666777777777777665544                3444555555555544  34553211 11223


Q ss_pred             HHHhcCCCChHHHHHHHHHHHHcCCCc--Ch----------hh--HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHH
Q 039177          178 SVCEQRDLSSDELLGFVQEMKKLGFCF--GM----------VD--YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVC  243 (453)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~g~~~--~~----------~~--~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  243 (453)
                      .+.+.|.+  +.|..=|+.+......-  ..          ..  ....+..+.-.|+...|++....+.+..+- |...
T Consensus       115 vllK~Gel--e~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~W-da~l  191 (504)
T KOG0624|consen  115 VLLKQGEL--EQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPW-DASL  191 (504)
T ss_pred             hhhhcccH--HHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcc-hhHH
Confidence            45678888  88888888887764211  11          11  223455666778999999999888876433 7778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH----HHH--
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITY----NTL--  317 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~----~~l--  317 (453)
                      |..-..+|...|++..|+.=++..-+.. ..++.++--+-..+...|+.+.++...++..+.  .||...+    -.|  
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHH
Confidence            8888889999999999887777765543 345556666677788899999999988888884  4665422    111  


Q ss_pred             -------HHHHHhcCCHHHHHHHHHHHHHCCCCcCHH---HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          318 -------LQALCKVRELNRLRELVKEMKWKGIVLNLQ---TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       318 -------i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                             +......++|.++..-.+...+....-...   .+..+-.+|...|++.+|++...+..+.. +.|..++---
T Consensus       269 v~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d-~~dv~~l~dR  347 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDR  347 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHH
Confidence                   223345677777777777777764432222   34455667778899999999999887643 2335566666


Q ss_pred             HHHHHhCCCHHHHHHHHHHHhh
Q 039177          388 ICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       388 i~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ..+|.--..++.|+.=|+...+
T Consensus       348 AeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  348 AEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHh
Confidence            6777777778888887777764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.28  E-value=0.0035  Score=58.12  Aligned_cols=107  Identities=13%  Similarity=-0.023  Sum_probs=79.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      .+.+.+.|++..|...|.++++..+. |...|..-.-+|.+.|.+..|+.=.+...+.+ +++...|..=..++.-..++
T Consensus       365 Gne~Fk~gdy~~Av~~YteAIkr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~y  442 (539)
T KOG0548|consen  365 GNEAFKKGDYPEAVKHYTEAIKRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEY  442 (539)
T ss_pred             HHHHHhccCHHHHHHHHHHHHhcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHH
Confidence            55667889999999999999998766 88899999999999999999998888877764 33444444444455555678


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHhchhc
Q 039177          398 RKALELLKQMADKDVSPGARVWEALLLSSVS  428 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~  428 (453)
                      ++|.+.|.+..+.  .|+..-+..-+.-|..
T Consensus       443 dkAleay~eale~--dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  443 DKALEAYQEALEL--DPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHHHHHHHHHhc--CchhHHHHHHHHHHHH
Confidence            8888888887744  4666666555555543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.24  E-value=5.7e-05  Score=59.16  Aligned_cols=104  Identities=12%  Similarity=-0.009  Sum_probs=58.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      ....+...+.+.|++++|...|+.+...+.. +...+..+...|.+.|++++|...++...+.+ ..+...+..+...|.
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~   96 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            3444555555666666666666666555433 55556666666666666666666666655543 233444555555666


Q ss_pred             hCCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 039177          393 QRGLVRKALELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~  420 (453)
                      ..|++++|...|+...+  +.|+...+.
T Consensus        97 ~~g~~~~A~~~~~~al~--~~p~~~~~~  122 (135)
T TIGR02552        97 ALGEPESALKALDLAIE--ICGENPEYS  122 (135)
T ss_pred             HcCCHHHHHHHHHHHHH--hccccchHH
Confidence            66666666666666553  234444433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.24  E-value=2e-06  Score=49.29  Aligned_cols=33  Identities=36%  Similarity=0.654  Sum_probs=18.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPD  240 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  240 (453)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.24  E-value=0.0035  Score=62.49  Aligned_cols=276  Identities=13%  Similarity=0.162  Sum_probs=136.3

Q ss_pred             HHHHHHHHcCCC--CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHH
Q 039177          101 SVLDHIEKRENF--ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSS  178 (453)
Q Consensus       101 ~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  178 (453)
                      +++++..+. ++  ..|+.-....+.++...+-+.+-+++++++.-.+                +-+.-+...-+.|+-.
T Consensus       968 qLiDqVv~t-al~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~----------------S~Fse~~nLQnLLiLt 1030 (1666)
T KOG0985|consen  968 QLIDQVVQT-ALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDN----------------SVFSENRNLQNLLILT 1030 (1666)
T ss_pred             HHHHHHHHh-cCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCC----------------cccccchhhhhhHHHH
Confidence            344444443 22  2345566677788888888888888887754211                1111222233334433


Q ss_pred             HHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC---------------------C
Q 039177          179 VCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDG---------------------I  237 (453)
Q Consensus       179 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------------------~  237 (453)
                      ..+...   ..+++..+++.... .|+      +...+...+-+++|..+|+..-..+                     -
T Consensus      1031 Aikad~---trVm~YI~rLdnyD-a~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~ 1100 (1666)
T KOG0985|consen 1031 AIKADR---TRVMEYINRLDNYD-APD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAER 1100 (1666)
T ss_pred             HhhcCh---HHHHHHHHHhccCC-chh------HHHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHh
Confidence            333332   35555555544332 122      2233444455555555555442100                     0


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 039177          238 KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTL  317 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  317 (453)
                      .-....|+.+..+-.+.|...+|++-|-+.      .|+..|.-++....+.|.+++-.+.+.-..+..-.|..  =+.|
T Consensus      1101 ~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eL 1172 (1666)
T KOG0985|consen 1101 CNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSEL 1172 (1666)
T ss_pred             hCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHH
Confidence            002234444444444444444444333211      23444555555555555555555444444443323322  2344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      |-+|++.+++.+.++++       ..||......+.+-|...|.++.|.-++..         ..-|..|...+...|.+
T Consensus      1173 i~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~---------vSN~a~La~TLV~Lgey 1236 (1666)
T KOG0985|consen 1173 IFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSN---------VSNFAKLASTLVYLGEY 1236 (1666)
T ss_pred             HHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHH
Confidence            44555555544433332       123444444444445555555554444432         33466777788888888


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhhH
Q 039177          398 RKALELLKQMADKDVSPGARVWEALLLSSVSKLDFV  433 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~  433 (453)
                      ..|...-++.      -+..||..+=.||....++-
T Consensus      1237 Q~AVD~aRKA------ns~ktWK~VcfaCvd~~EFr 1266 (1666)
T KOG0985|consen 1237 QGAVDAARKA------NSTKTWKEVCFACVDKEEFR 1266 (1666)
T ss_pred             HHHHHHhhhc------cchhHHHHHHHHHhchhhhh
Confidence            8887766654      36678888888887665543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.22  E-value=0.0047  Score=57.40  Aligned_cols=365  Identities=10%  Similarity=0.089  Sum_probs=204.0

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------  146 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------  146 (453)
                      -+-|..+|..+|+-+... .++++.+.++++...  ++.....|..-|..-.+..+++....+|.+....-         
T Consensus        16 nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lY   92 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLY   92 (656)
T ss_pred             CCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHH
Confidence            456888999999987766 999999999999975  56677899999999999999999999998865432         


Q ss_pred             -----------CCcHHHHHHHHHHH-HHCCCccCh-HhHHHHHHHHH---hcCCCCh----HHHHHHHHHHHHcCCCc--
Q 039177          147 -----------INRVGFAIEILNCM-INDGFCVDG-KTCSLILSSVC---EQRDLSS----DELLGFVQEMKKLGFCF--  204 (453)
Q Consensus       147 -----------~~~~~~a~~~~~~m-~~~~~~p~~-~~~~~ll~~~~---~~~~~~~----~~a~~~~~~~~~~g~~~--  204 (453)
                                 .+.-+...+.|+-. .+.|+.+-. ..|+..+..+-   ..|.+..    +...++++.+...-+.-  
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlE  172 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLE  172 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHH
Confidence                       11111122222222 223443322 23444444322   1222210    44455555544321100  


Q ss_pred             ----ChhhHHHHHHHHH-------hcCChhHHHHHHHHHHh--CCCCCCHHH---------------HHHHHHHHH----
Q 039177          205 ----GMVDYTNVIRSLV-------KKEKVFDALGILNQMKS--DGIKPDIVC---------------YTMVLNGVI----  252 (453)
Q Consensus       205 ----~~~~~~~li~~~~-------~~g~~~~a~~~~~~m~~--~~~~~~~~~---------------~~~ll~~~~----  252 (453)
                          |-..|..=|+...       +...+..|.++++++..  .|......+               |-.+|.-=-    
T Consensus       173 kLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL  252 (656)
T KOG1914|consen  173 KLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCc
Confidence                0111111111111       12334556666655542  232211111               322221100    


Q ss_pred             ---------------------------------------------hcCC-------HHHHHHHHHHHHHCCCCCChhhHH
Q 039177          253 ---------------------------------------------VQED-------YVKAEELFDELLVLGLVPDVYTYN  280 (453)
Q Consensus       253 ---------------------------------------------~~g~-------~~~a~~~~~~m~~~g~~~~~~~~~  280 (453)
                                                                   ..|+       -+++..+++.....-...+..+|.
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~  332 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYF  332 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                                         0111       122222222222211111122222


Q ss_pred             HHHHHHHhc---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHH
Q 039177          281 VYINGLCKQ---NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-NLQTYSIMIDGL  356 (453)
Q Consensus       281 ~li~~~~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~li~~~  356 (453)
                      .+...--..   +..+....++..+...-..--.-+|..+++.-.+...++.|..+|....+.+..+ ++..+++++.-|
T Consensus       333 ~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~  412 (656)
T KOG1914|consen  333 ALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYY  412 (656)
T ss_pred             HHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHH
Confidence            211110001   1233444444444432211122367788888888999999999999999987776 788899999988


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC--HHHHHHHHhc--hhcchhh
Q 039177          357 ASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPG--ARVWEALLLS--SVSKLDF  432 (453)
Q Consensus       357 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~ll~a--~~~~~~~  432 (453)
                      |. ++..-|.++|+--.++ ..-+...-...+.-+...|+-..|..+|++....++.|+  ...|..+|.-  +.+....
T Consensus       413 cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~s  490 (656)
T KOG1914|consen  413 CS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNS  490 (656)
T ss_pred             hc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHH
Confidence            75 7889999999876654 223344456667788889999999999999998877665  4788888763  3444444


Q ss_pred             HHHHHHHHHHhhh
Q 039177          433 VNTSFIRLVDQIL  445 (453)
Q Consensus       433 ~~~~~~~~~~~~~  445 (453)
                      ..+.-.+++..+.
T Consensus       491 i~~lekR~~~af~  503 (656)
T KOG1914|consen  491 ILKLEKRRFTAFP  503 (656)
T ss_pred             HHHHHHHHHHhcc
Confidence            4444555555555

>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=98.21  E-value=0.00012  Score=67.32  Aligned_cols=121  Identities=16%  Similarity=0.121  Sum_probs=61.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 039177          246 MVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR  325 (453)
Q Consensus       246 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  325 (453)
                      .|+..+...++++.|..+|+++.+..  |+  ....++..+...++-.+|.+++.+..+.. +-|...+..-...|.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            34444445555555666665555532  32  22334445555555555555555555432 123444444455555555


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      +++.|+.+.+++.+..+. +-.+|..|..+|.+.|+++.|+..++.+
T Consensus       249 ~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  249 KYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             CHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            555555555555554322 3345555555666666666555555544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.21  E-value=2.8e-06  Score=48.34  Aligned_cols=32  Identities=22%  Similarity=0.440  Sum_probs=18.5

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCC
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADKDVSP  414 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  414 (453)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            45555555555555555555555555555554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.19  E-value=0.0061  Score=57.27  Aligned_cols=162  Identities=14%  Similarity=0.082  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH--------HHHHCCCCCCHH
Q 039177          243 CYTMVLNGVIVQ--EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA--------CMEELGSKPDVI  312 (453)
Q Consensus       243 ~~~~ll~~~~~~--g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~--------~m~~~~~~p~~~  312 (453)
                      .+.+++..+.+.  .....+..++...-+....-.....-+++......|+++.|.+++.        .+.+.+..|  .
T Consensus       341 ~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P--~  418 (652)
T KOG2376|consen  341 LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLP--G  418 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccCh--h
Confidence            444444444322  2456667776666554322224455566777888999999999999        566655444  4


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHH----HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWK--GIVLNLQT----YSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDE  386 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~----~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  386 (453)
                      +...++..+.+.++-+.|..++.+..+.  .-.+....    +.-+..--.+.|+.++|..+++++.+.+ .++..+...
T Consensus       419 ~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~  497 (652)
T KOG2376|consen  419 TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQ  497 (652)
T ss_pred             HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHH
Confidence            5567777888888888888888777653  11112222    3333334456799999999999999865 678889999


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHh
Q 039177          387 TICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ++.+|++. +++.|..+-..+.
T Consensus       498 lV~a~~~~-d~eka~~l~k~L~  518 (652)
T KOG2376|consen  498 LVTAYARL-DPEKAESLSKKLP  518 (652)
T ss_pred             HHHHHHhc-CHHHHHHHhhcCC
Confidence            99999886 6788887766653

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.17  E-value=0.00014  Score=56.97  Aligned_cols=95  Identities=13%  Similarity=0.097  Sum_probs=48.5

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLC  287 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  287 (453)
                      ....+...+...|++++|.+.|+.+...+.. +...|..+...+...|++++|..+++...+.+ +.+...+..+...|.
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~   96 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYDPY-NSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            3444445555555555555555555544322 44455555555555555555555555554433 223344444444555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 039177          288 KQNNVEAGIKMIACMEE  304 (453)
Q Consensus       288 ~~~~~~~a~~~~~~m~~  304 (453)
                      ..|+.++|...|+...+
T Consensus        97 ~~g~~~~A~~~~~~al~  113 (135)
T TIGR02552        97 ALGEPESALKALDLAIE  113 (135)
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.15  E-value=4.1e-05  Score=70.60  Aligned_cols=125  Identities=12%  Similarity=0.084  Sum_probs=103.1

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 039177          235 DGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL--GLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVI  312 (453)
Q Consensus       235 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  312 (453)
                      .+.+.+......+++.+....+.+.+..++-.+...  ....-..|..++|+.|.+.|..+.++.++..=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            344557778888888888888889999988888764  222334566799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ++|.||+.+.+.|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999888887766777777777776665

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 [].

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

Probab=98.15  E-value=0.0079  Score=57.16  Aligned_cols=305  Identities=14%  Similarity=0.056  Sum_probs=196.9

Q ss_pred             HHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC
Q 039177           89 TLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD  168 (453)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~  168 (453)
                      -|...+.+...+...+.+.+.  ++....+.....-.+...|+-++|......                  -.. +-.-+
T Consensus        16 k~yE~kQYkkgLK~~~~iL~k--~~eHgeslAmkGL~L~~lg~~~ea~~~vr~------------------glr-~d~~S   74 (700)
T KOG1156|consen   16 KCYETKQYKKGLKLIKQILKK--FPEHGESLAMKGLTLNCLGKKEEAYELVRL------------------GLR-NDLKS   74 (700)
T ss_pred             HHHHHHHHHhHHHHHHHHHHh--CCccchhHHhccchhhcccchHHHHHHHHH------------------Hhc-cCccc
Confidence            345567788888888888874  344444554444445566777777765543                  222 11235


Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVL  248 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll  248 (453)
                      .++|..+.-.+....+.  ++|.+.|....+.+ +-|...|.-+--.-++.|+++........+.+..+. ....|..+.
T Consensus        75 ~vCwHv~gl~~R~dK~Y--~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~-~ra~w~~~A  150 (700)
T KOG1156|consen   75 HVCWHVLGLLQRSDKKY--DEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS-QRASWIGFA  150 (700)
T ss_pred             chhHHHHHHHHhhhhhH--HHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh-hHHHHHHHH
Confidence            56777777666666777  99999999998876 556777888877788889999998888888876433 566788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCC-CCChhhHHHHHH------HHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHH
Q 039177          249 NGVIVQEDYVKAEELFDELLVLGL-VPDVYTYNVYIN------GLCKQNNVEAGIKMIACMEELGSKPDVI-TYNTLLQA  320 (453)
Q Consensus       249 ~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~------~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~  320 (453)
                      .++.-.|+...|..++++..+... .|+...+.-...      ...+.|..++|.+.+..-... + .|.. .-..-...
T Consensus       151 vs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i-~Dkla~~e~ka~l  228 (700)
T KOG1156|consen  151 VAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADL  228 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHH
Confidence            888899999999999999877542 455555543322      345677778887776655432 1 2332 33445667


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH-HHHHHHHHC---CCCCChhhHHHHHHHHHhCCC
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEAC-GLLEEALNK---GLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~---~~~~~~~~~~~li~~~~~~g~  396 (453)
                      +.+.+++++|..++..++...+. +...|..+..++.+--+.-++. .+|....+.   ...|-...    +.......-
T Consensus       229 ~~kl~~lEeA~~~y~~Ll~rnPd-n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlp----lsvl~~eel  303 (700)
T KOG1156|consen  229 LMKLGQLEEAVKVYRRLLERNPD-NLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLP----LSVLNGEEL  303 (700)
T ss_pred             HHHHhhHHhHHHHHHHHHhhCch-hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhcc----HHHhCcchh
Confidence            88999999999999999998443 4444455555554333333344 666666543   11121111    111111223


Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHHHhc
Q 039177          397 VRKALELLKQMADKDVSPGARVWEALLLS  425 (453)
Q Consensus       397 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~a  425 (453)
                      .+..-.++..+..+|+.+-...+.+|..-
T Consensus       304 ~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~  332 (700)
T KOG1156|consen  304 KEIVDKYLRPLLSKGVPSVFKDLRSLYKD  332 (700)
T ss_pred             HHHHHHHHHHHhhcCCCchhhhhHHHHhc
Confidence            44555677788888988766666666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.14  E-value=4.3e-06  Score=47.54  Aligned_cols=32  Identities=31%  Similarity=0.585  Sum_probs=14.8

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKP  239 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (453)
                      +|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            34444444444444444444444444444443

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.11  E-value=0.0028  Score=58.18  Aligned_cols=147  Identities=15%  Similarity=0.071  Sum_probs=120.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD-VYTYNVYING  285 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~  285 (453)
                      ..+.-....+...|++++|+..++.+...-+. |...+......+.+.++.++|.+.++.+...  .|+ ...+-.+..+
T Consensus       307 aa~YG~A~~~~~~~~~d~A~~~l~~L~~~~P~-N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~a  383 (484)
T COG4783         307 AAQYGRALQTYLAGQYDEALKLLQPLIAAQPD-NPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQA  383 (484)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHH
Confidence            33444455566789999999999999876433 7777788888999999999999999999885  355 5666778889


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +.+.|++.+|+.++....... +-|...|..|.++|...|+..++..-..+                  +|...|+++.|
T Consensus       384 ll~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A  444 (484)
T COG4783         384 LLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQA  444 (484)
T ss_pred             HHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHH
Confidence            999999999999999988764 34788999999999999998888766544                  44567999999


Q ss_pred             HHHHHHHHHC
Q 039177          366 CGLLEEALNK  375 (453)
Q Consensus       366 ~~~~~~m~~~  375 (453)
                      ...+....+.
T Consensus       445 ~~~l~~A~~~  454 (484)
T COG4783         445 IIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHHh
Confidence            9999888776

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.11  E-value=0.0026  Score=62.00  Aligned_cols=150  Identities=11%  Similarity=0.015  Sum_probs=87.2

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCC--------CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENF--------ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----  146 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----  146 (453)
                      +...|..+.+.|.+.++++-|.-.+.+|....|.        .++ ..-....-.....|.+++|..+|.+....+    
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~DLlNK  834 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRYDLLNK  834 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence            5567999999999999999988777777643321        111 222233344567788899998888876655    


Q ss_pred             ----CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHH----------HHcCC---------C
Q 039177          147 ----INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEM----------KKLGF---------C  203 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~----------~~~g~---------~  203 (453)
                          .|.+++|+++-+.--+..++   .||.....-+-..+++  +.|++.|+..          .....         .
T Consensus       835 lyQs~g~w~eA~eiAE~~DRiHLr---~Tyy~yA~~Lear~Di--~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~  909 (1416)
T KOG3617|consen  835 LYQSQGMWSEAFEIAETKDRIHLR---NTYYNYAKYLEARRDI--EAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRK  909 (1416)
T ss_pred             HHHhcccHHHHHHHHhhccceehh---hhHHHHHHHHHhhccH--HHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhc
Confidence                78888888876543322222   2444444444455555  6666655432          11110         0


Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                      .|...|.-.....-..|+.+.|+.+|....+
T Consensus       910 ~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  910 RDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             cchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence            1222333333333445777777777766553

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.09  E-value=7.9e-05  Score=68.78  Aligned_cols=124  Identities=14%  Similarity=0.124  Sum_probs=107.7

Q ss_pred             CCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 039177          201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD--GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYT  278 (453)
Q Consensus       201 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~  278 (453)
                      +.+.+......+++.+....+++.+..++.+.+..  ....-..|..++++.|.+.|..+.++.++..=...|+-||..+
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            44667777888888888889999999999999875  3333345667999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                      +|.+|+.+.+.|++..|.++...|...+...+..|+...+.+|.+.
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            9999999999999999999999998877777888888888888776

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 [].

>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=98.05  E-value=0.00031  Score=64.65  Aligned_cols=125  Identities=14%  Similarity=0.216  Sum_probs=103.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      ...|+..+...++++.|+++|+++.+..  |+  ....++..+...++-.+|.+++.+.++.. +.+......-...+.+
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 VDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            4566677777899999999999999874  44  44568888888899999999999988653 3456666666777899


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          289 QNNVEAGIKMIACMEELGSKPDVI-TYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      .++.+.|..+.+++.+.  .|+.. +|..|..+|.+.|+++.|+..++.+...
T Consensus       247 k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  247 KKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             cCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            99999999999999984  57665 9999999999999999999999988765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.02  E-value=0.017  Score=56.16  Aligned_cols=307  Identities=15%  Similarity=0.072  Sum_probs=194.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CCcHHHHHHHHHHHHHCCCcc-ChHhHH
Q 039177          111 NFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------INRVGFAIEILNCMINDGFCV-DGKTCS  173 (453)
Q Consensus       111 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~~a~~~~~~m~~~~~~p-~~~~~~  173 (453)
                      .+.-+..+|..|.-+...+|+++.+.+.|++.....                .|....|+.+++.-....-.| |...+.
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            356688999999999999999999999999865533                456666777776655432224 333444


Q ss_pred             HHHHHHHhc-CCCChHHHHHHHHHHHHc--CC--CcChhhHHHHHHHHHhc-----------CChhHHHHHHHHHHhCCC
Q 039177          174 LILSSVCEQ-RDLSSDELLGFVQEMKKL--GF--CFGMVDYTNVIRSLVKK-----------EKVFDALGILNQMKSDGI  237 (453)
Q Consensus       174 ~ll~~~~~~-~~~~~~~a~~~~~~~~~~--g~--~~~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~  237 (453)
                      ..-+.|.+. +..  ++++++-.+....  +.  ......|..+.-+|...           ....++++.+++..+.+.
T Consensus       398 masklc~e~l~~~--eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  398 MASKLCIERLKLV--EEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHhchhhh--hhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            444444433 333  6666665555552  11  12334455555555532           224578888888877644


Q ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CC--------
Q 039177          238 -KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL-GS--------  307 (453)
Q Consensus       238 -~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~--------  307 (453)
                       .|++..|-+  --|+..++++.|.+..++..+.+-..+...|..+.-.+...+++.+|+.+.+..... |.        
T Consensus       476 ~dp~~if~la--lq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~  553 (799)
T KOG4162|consen  476 TDPLVIFYLA--LQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGK  553 (799)
T ss_pred             CCchHHHHHH--HHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhh
Confidence             344444433  346677899999999999999866788999999999999999999999998776542 21        


Q ss_pred             ----------CCCHHHHHHHHHHHHh---------c--------------CCHHHHHHHHHHH----H----HCC-----
Q 039177          308 ----------KPDVITYNTLLQALCK---------V--------------RELNRLRELVKEM----K----WKG-----  341 (453)
Q Consensus       308 ----------~p~~~~~~~li~~~~~---------~--------------~~~~~a~~~~~~~----~----~~~-----  341 (453)
                                .--..|+..++..+-.         .              ++..++......+    .    ..|     
T Consensus       554 ~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~L  633 (799)
T KOG4162|consen  554 IHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKL  633 (799)
T ss_pred             hhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhccccccc
Confidence                      0012233333333320         0              0111111111111    0    001     


Q ss_pred             ------CCcC------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          342 ------IVLN------LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       342 ------~~p~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                            ..|+      ...|......+.+.+..++|...+.+..... ......|......+...|..++|.+.|.... 
T Consensus       634 p~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al-  711 (799)
T KOG4162|consen  634 PSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVAL-  711 (799)
T ss_pred             CcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH-
Confidence                  1123      3466777888999999999998888886653 3455567766677888999999999999887 


Q ss_pred             CCCCCCHHHHHHHHh
Q 039177          410 KDVSPGARVWEALLL  424 (453)
Q Consensus       410 ~~~~p~~~~~~~ll~  424 (453)
                       -+.|+..--..-+.
T Consensus       712 -~ldP~hv~s~~Ala  725 (799)
T KOG4162|consen  712 -ALDPDHVPSMTALA  725 (799)
T ss_pred             -hcCCCCcHHHHHHH
Confidence             56777555444333

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.00  E-value=0.013  Score=54.44  Aligned_cols=309  Identities=14%  Similarity=0.135  Sum_probs=185.0

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------------CCcHH
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------------INRVG  151 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------------~~~~~  151 (453)
                      ++....|+++.|..+|-....-.  ++|...|..-..+|++.|++++|++=-.+-.+.+                .|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHH
Confidence            45667889999999998888764  6688888888999999999888765433322222                67788


Q ss_pred             HHHHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHH------HHHHHc---CCCcChhhHHHHHHHHHhc--
Q 039177          152 FAIEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFV------QEMKKL---GFCFGMVDYTNVIRSLVKK--  219 (453)
Q Consensus       152 ~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~------~~~~~~---g~~~~~~~~~~li~~~~~~--  219 (453)
                      +|+.-|..=++.  .| |...++-+..++...     ..+.+.|      ..+...   ........|..++..+-+.  
T Consensus        88 eA~~ay~~GL~~--d~~n~~L~~gl~~a~~~~-----~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~  160 (539)
T KOG0548|consen   88 EAILAYSEGLEK--DPSNKQLKTGLAQAYLED-----YAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPT  160 (539)
T ss_pred             HHHHHHHHHhhc--CCchHHHHHhHHHhhhHH-----HHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcH
Confidence            887777765553  34 344555566555111     0111111      000000   0000011122222222111  


Q ss_pred             --------CChhHHHHHHHHH-----HhCC-------CCC----------------------CHHHHHHHHHHHHhcCCH
Q 039177          220 --------EKVFDALGILNQM-----KSDG-------IKP----------------------DIVCYTMVLNGVIVQEDY  257 (453)
Q Consensus       220 --------g~~~~a~~~~~~m-----~~~~-------~~~----------------------~~~~~~~ll~~~~~~g~~  257 (453)
                              ..+..+..++...     ...+       ..|                      -..-...+.++..+..++
T Consensus       161 ~l~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f  240 (539)
T KOG0548|consen  161 SLKLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDF  240 (539)
T ss_pred             hhhcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhH
Confidence                    1111111111100     0000       111                      111344567777788888


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH-------HHHHHHHhcCCHHHH
Q 039177          258 VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYN-------TLLQALCKVRELNRL  330 (453)
Q Consensus       258 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-------~li~~~~~~~~~~~a  330 (453)
                      ..|++.+....+..  -+..-++..-.+|...|.+.+....-....+.|-. ...-|+       .+..+|.+.++++.+
T Consensus       241 ~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~a  317 (539)
T KOG0548|consen  241 ETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGA  317 (539)
T ss_pred             HHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHH
Confidence            99999998887754  45556677777788888888877776666655422 111222       234466677888899


Q ss_pred             HHHHHHHHHCCCCcCHHHHH-------------------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 039177          331 RELVKEMKWKGIVLNLQTYS-------------------------IMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFD  385 (453)
Q Consensus       331 ~~~~~~~~~~~~~p~~~~~~-------------------------~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  385 (453)
                      ...|...+.....|+...-.                         .=...+.+.|++..|+..+.+++..+ +-|...|.
T Consensus       318 i~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYs  396 (539)
T KOG0548|consen  318 IKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYS  396 (539)
T ss_pred             HHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHH
Confidence            99888877665554432211                         11334678899999999999999886 56777899


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          386 ETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       386 ~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .-..+|.+.|.+..|+.=.+...+
T Consensus       397 NRAac~~kL~~~~~aL~Da~~~ie  420 (539)
T KOG0548|consen  397 NRAACYLKLGEYPEALKDAKKCIE  420 (539)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHh
Confidence            999999999999999887666653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.98  E-value=0.00014  Score=52.59  Aligned_cols=75  Identities=21%  Similarity=0.327  Sum_probs=39.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGS-KPDVITYNTLLQALCKVR--------ELNRLRELVKEMKWKGIVLNLQTYSIMI  353 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~~~~~~~~p~~~~~~~li  353 (453)
                      |.-+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.++++|+..+++|+..+|+.++
T Consensus        32 I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl  111 (120)
T PF08579_consen   32 INSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVL  111 (120)
T ss_pred             HHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHH
Confidence            3344444556666666666666665 556666666655554321        1233455555555555555555555555


Q ss_pred             HHHH
Q 039177          354 DGLA  357 (453)
Q Consensus       354 ~~~~  357 (453)
                      ..+.
T Consensus       112 ~~Ll  115 (120)
T PF08579_consen  112 GSLL  115 (120)
T ss_pred             HHHH
Confidence            5544

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 [, , ].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.97  E-value=0.00096  Score=52.88  Aligned_cols=86  Identities=10%  Similarity=0.128  Sum_probs=37.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPDV--ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      ..+...|++++|...|+.+......++.  ...-.|...+...|++++|+..++......  .....+....+.|.+.|+
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~  133 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGD  133 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCC
Confidence            3344455555555555555543311111  122233444445555555555554322211  122334444445555555


Q ss_pred             HHHHHHHHHH
Q 039177          362 IIEACGLLEE  371 (453)
Q Consensus       362 ~~~A~~~~~~  371 (453)
                      .++|...|+.
T Consensus       134 ~~~A~~~y~~  143 (145)
T PF09976_consen  134 YDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHH
Confidence            5555555443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.97  E-value=0.0077  Score=50.60  Aligned_cols=185  Identities=16%  Similarity=0.108  Sum_probs=126.5

Q ss_pred             hHHHHHHHHHHHHc---C-CCcChh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHH
Q 039177          187 SDELLGFVQEMKKL---G-FCFGMV-DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI-VCYTMVLNGVIVQEDYVKA  260 (453)
Q Consensus       187 ~~~a~~~~~~~~~~---g-~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~g~~~~a  260 (453)
                      +++..+++.++...   | ..++.. .|..++-+....|+.+.|..+++.+...-  |.. ..-..-.--+-..|++++|
T Consensus        28 seevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   28 SEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             HHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhhchhhH
Confidence            37777777776543   3 344443 36677777888899999999999988763  222 2111111224456889999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          261 EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       261 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +++++.+++.+ +.|..++-.=+...-..|+.-+|++-+....+. +.-|...|.-+...|...|++++|.-.++++.-.
T Consensus       106 ~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  106 IEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            99999988876 456666666666666677766777766665553 4458888999999999999999999999888877


Q ss_pred             CCCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCC
Q 039177          341 GIVLNLQTYSIMIDGLASKG---DIIEACGLLEEALNKG  376 (453)
Q Consensus       341 ~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~  376 (453)
                      .+. +...+..+.+.+--.|   +...|.+.+.+..+..
T Consensus       184 ~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  184 QPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             CCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            443 5555566666554444   4556788888777654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.97  E-value=0.00059  Score=54.08  Aligned_cols=128  Identities=9%  Similarity=0.000  Sum_probs=93.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH--HHHHHH
Q 039177          277 YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD--VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNL--QTYSIM  352 (453)
Q Consensus       277 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l  352 (453)
                      ..|..++..+ ..++...+...++.+.+....-.  ....-.+...+...|++++|...|+.+......|+.  ...-.|
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            3455555555 48888999999999988642211  123344557888999999999999999998644332  244557


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          353 IDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       353 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      ...+...|++++|+..++......  .....+......|.+.|+.++|...|+..
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            788899999999999997754333  23445666778899999999999999864

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.94  E-value=0.0014  Score=62.99  Aligned_cols=77  Identities=16%  Similarity=0.195  Sum_probs=42.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      +......+.+|+.+++.+....  .-...|..+.+-|+..|+++.|.++|-+.         ..++-.|.+|.+.|+++.
T Consensus       741 aai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            3344555666666666655532  22234555566666666666666666432         123445666666666666


Q ss_pred             HHHHHHHH
Q 039177          365 ACGLLEEA  372 (453)
Q Consensus       365 A~~~~~~m  372 (453)
                      |.++-++.
T Consensus       810 a~kla~e~  817 (1636)
T KOG3616|consen  810 AFKLAEEC  817 (1636)
T ss_pred             HHHHHHHh
Confidence            66655443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.94  E-value=1.3e-05  Score=44.31  Aligned_cols=29  Identities=28%  Similarity=0.684  Sum_probs=15.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhCC
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADKD  411 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~  411 (453)
                      +|+.++.+|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            35555555555555555555555555444

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.94  E-value=0.0091  Score=59.63  Aligned_cols=148  Identities=11%  Similarity=0.050  Sum_probs=99.0

Q ss_pred             hhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--------------
Q 039177           81 EAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--------------  146 (453)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------------  146 (453)
                      ..|..+...|+...+...|...|+...+-+  ..+...+....+.|++...++.|..+.-...+..              
T Consensus       493 paf~~LG~iYrd~~Dm~RA~kCf~KAFeLD--atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~  570 (1238)
T KOG1127|consen  493 PAFAFLGQIYRDSDDMKRAKKCFDKAFELD--ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGP  570 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccc
Confidence            356667777777667777777777776553  5567788888999999999998888754433322              


Q ss_pred             ----CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh
Q 039177          147 ----INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV  222 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  222 (453)
                          .++...++.-|+...+.. +-|...|..+..+|...|..  ..|.++|....... +.+...-.-..-+-+..|.+
T Consensus       571 yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry--~~AlKvF~kAs~Lr-P~s~y~~fk~A~~ecd~GkY  646 (1238)
T KOG1127|consen  571 YYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRY--SHALKVFTKASLLR-PLSKYGRFKEAVMECDNGKY  646 (1238)
T ss_pred             cccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCce--ehHHHhhhhhHhcC-cHhHHHHHHHHHHHHHhhhH
Confidence                456666777777766542 23566888888888888888  78888887766543 22222222333445566777


Q ss_pred             hHHHHHHHHHHh
Q 039177          223 FDALGILNQMKS  234 (453)
Q Consensus       223 ~~a~~~~~~m~~  234 (453)
                      .+|+..+.....
T Consensus       647 keald~l~~ii~  658 (1238)
T KOG1127|consen  647 KEALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHHHH
Confidence            777777666543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.90  E-value=1.7e-05  Score=43.86  Aligned_cols=29  Identities=24%  Similarity=0.515  Sum_probs=14.3

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDG  236 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  236 (453)
                      +|+++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44555555555555555555555554443

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.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.89  E-value=0.00033  Score=50.76  Aligned_cols=74  Identities=12%  Similarity=0.295  Sum_probs=37.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CcCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGI-VLNLQTYSIMIDGLASKG--------DIIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g--------~~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                      .|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-..+.+++.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444444666666666666666666 566666666666554422        122334444444444444444444444


Q ss_pred             HHH
Q 039177          388 ICG  390 (453)
Q Consensus       388 i~~  390 (453)
                      +..
T Consensus       111 l~~  113 (120)
T PF08579_consen  111 LGS  113 (120)
T ss_pred             HHH
Confidence            433

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 [, , ].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.84  E-value=0.021  Score=51.49  Aligned_cols=133  Identities=15%  Similarity=0.141  Sum_probs=99.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ..+.+..|.-+...|+...|.++-.+..-    ||..-|...+.+++..++|++..++-..  ++    .+.-|..++.+
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fkv----~dkrfw~lki~aLa~~~~w~eL~~fa~s--kK----sPIGyepFv~~  246 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFKV----PDKRFWWLKIKALAENKDWDELEKFAKS--KK----SPIGYEPFVEA  246 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcCC----cHHHHHHHHHHHHHhcCCHHHHHHHHhC--CC----CCCChHHHHHH
Confidence            34556667778888999888888766642    7889999999999999999988876543  22    44678889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchhhHH
Q 039177          356 LASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLDFVN  434 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~~~~  434 (453)
                      |.+.|+..+|..++.++      ++    ..-+..|.++|++.+|.+.-.+..      |...+..+...|-+..+...
T Consensus       247 ~~~~~~~~eA~~yI~k~------~~----~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~~~~~~~~~~  309 (319)
T PF04840_consen  247 CLKYGNKKEASKYIPKI------PD----EERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKRCPGNNDQLI  309 (319)
T ss_pred             HHHCCCHHHHHHHHHhC------Ch----HHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHHCCCCChHHH
Confidence            99999999999988772      22    334888999999999988766653      66667777766655544443

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

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.83  E-value=0.0084  Score=51.94  Aligned_cols=183  Identities=11%  Similarity=0.080  Sum_probs=114.1

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCY---TMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVY  282 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~---~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l  282 (453)
                      ...+-.....+.+.|++++|.+.|+.+...-+.. ....   -.+..++.+.+++++|...+++..+.........+...
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            3334455666677899999999999998864432 2222   34567788999999999999999885433333344444


Q ss_pred             HHHHHh--cC---------------C---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          283 INGLCK--QN---------------N---VEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGI  342 (453)
Q Consensus       283 i~~~~~--~~---------------~---~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  342 (453)
                      +.+.+.  .+               +   ..+|.+.               +..+++-|-...-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~---------------~~~li~~yP~S~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRD---------------FSKLVRGYPNSQYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHH---------------HHHHHHHCcCChhHHHHHHHHHHHHHH--
Confidence            444331  11               1   1223333               334444444444455665555544433  


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          343 VLNLQTYSIMIDGLASKGDIIEACGLLEEALNK--GLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       343 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                        =...--.+..-|.+.|.+..|..-|+.+.+.  +..........++.+|...|..++|..+...+.
T Consensus       174 --la~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 --LAKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             --HHHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence              1111124566688889999999999988876  434445566677888999999999888776653

>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=97.83  E-value=0.00053  Score=49.31  Aligned_cols=90  Identities=17%  Similarity=0.082  Sum_probs=42.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      +...+...|++++|..++..+.+.... +...+..+...+...|++++|.+.|+...... ..+...+..+...+...|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            334444455555555555554443222 22344444445555555555555555544432 1122344444455555555


Q ss_pred             HHHHHHHHHHHh
Q 039177          397 VRKALELLKQMA  408 (453)
Q Consensus       397 ~~~A~~~~~~m~  408 (453)
                      +++|...+....
T Consensus        84 ~~~a~~~~~~~~   95 (100)
T cd00189          84 YEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.77  E-value=0.00072  Score=62.32  Aligned_cols=87  Identities=10%  Similarity=0.002  Sum_probs=45.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +...|++++|++.|++.++... -+...|..+..+|.+.|++++|+..++.+++.... +...|..+..+|...|++++|
T Consensus        12 a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~~~eA   89 (356)
T PLN03088         12 AFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEEYQTA   89 (356)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCHHHH
Confidence            4445555555555555555321 13344555555555555555555555555554332 444555555555555555555


Q ss_pred             HHHHHHHHH
Q 039177          366 CGLLEEALN  374 (453)
Q Consensus       366 ~~~~~~m~~  374 (453)
                      ...|++..+
T Consensus        90 ~~~~~~al~   98 (356)
T PLN03088         90 KAALEKGAS   98 (356)
T ss_pred             HHHHHHHHH
Confidence            555555554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.75  E-value=0.056  Score=53.65  Aligned_cols=199  Identities=15%  Similarity=0.064  Sum_probs=126.8

Q ss_pred             HHHHHHHH--HhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039177          172 CSLILSSV--CEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN  249 (453)
Q Consensus       172 ~~~ll~~~--~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  249 (453)
                      |..+++++  .+.|..  ++|..+++.....+. .|..|...+-.+|.+.++.++|..+|++....  -|+..-...+..
T Consensus        44 ~a~vLkaLsl~r~gk~--~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFm  118 (932)
T KOG2053|consen   44 YAKVLKALSLFRLGKG--DEALKLLEALYGLKG-TDDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFM  118 (932)
T ss_pred             HHHHHHHHHHHHhcCc--hhHHHHHhhhccCCC-CchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHH
Confidence            44555554  567777  888888777666553 37788888889999999999999999988876  455777777888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC----------CHHHHHHHHHHHHHCCCCC-CHHHHHHHH
Q 039177          250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQN----------NVEAGIKMIACMEELGSKP-DVITYNTLL  318 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----------~~~~a~~~~~~m~~~~~~p-~~~~~~~li  318 (453)
                      +|.+.+++.+-.++--+|-+. ++-+...|=++++.+.+.-          -...|.+.++.+.+.+-+. +..-...-.
T Consensus       119 ayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl  197 (932)
T KOG2053|consen  119 AYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYL  197 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHH
Confidence            888888776655444444331 2234444445555544321          1234666666666544111 111222223


Q ss_pred             HHHHhcCCHHHHHHHH-HHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          319 QALCKVRELNRLRELV-KEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~-~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      ..+...|.+++|..++ ....+.-..-+...-+.-++.+...+++.+..++-.++..+|
T Consensus       198 ~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  198 LILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            3445667788888888 344444344455555666777788888888888888877776

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.75  E-value=0.015  Score=58.20  Aligned_cols=180  Identities=9%  Similarity=-0.032  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHHcCCCcC-hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFG-MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDE  266 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  266 (453)
                      ..+...|-+..+..  ++ ...|..|...|...-+...|.+.|+...+.+.. |...+......|++..+++.|..+.-.
T Consensus       475 ~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  475 ALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            45555554444432  22 345777777777777777888888887776544 666777777888888888888777322


Q ss_pred             HHHCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 039177          267 LLVLG-LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN  345 (453)
Q Consensus       267 m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  345 (453)
                      .-+.. ...-...|...--.|.+.++...++.-|+...+..++ |...|..+..+|.+.|.+..|.++|.......+.  
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~--  628 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLLRPL--  628 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcH--
Confidence            22111 0011122222333466677777777777777664432 5667788888888888888888888776655322  


Q ss_pred             HHHHHHH--HHHHHhcCCHHHHHHHHHHHHH
Q 039177          346 LQTYSIM--IDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       346 ~~~~~~l--i~~~~~~g~~~~A~~~~~~m~~  374 (453)
                       .+|...  ...-+..|++.+|...++....
T Consensus       629 -s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  629 -SKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -hHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             122222  2223456777777777776654

>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=97.74  E-value=0.0013  Score=54.11  Aligned_cols=105  Identities=18%  Similarity=0.178  Sum_probs=62.9

Q ss_pred             CCChhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHH
Q 039177          273 VPDVYTYNVYINGLCK-----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQ  347 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  347 (453)
                      ..+..+|..++..|.+     .|+.+-....++.|.+.|+.-|..+|+.|++.+=+ |.+- -..+|+            
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ------------  109 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQ------------  109 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHH------------
Confidence            4677888888888764     46777777888888888888888888888887765 2211 011111            


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                         ++..-|  ..+-+-|++++++|...|+.||..++..|+..|++.+.
T Consensus       110 ---~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  110 ---AEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ---HHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               111111  11234455666666666666666666666666555443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.74  E-value=0.00091  Score=54.92  Aligned_cols=115  Identities=10%  Similarity=0.119  Sum_probs=78.1

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 039177          226 LGILNQMKSDGIKPDIVCYTMVLNGVIVQ-----EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA  300 (453)
Q Consensus       226 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  300 (453)
                      ...|+....  -..|..+|..++..|.+.     |..+-....++.|.+.|+.-|..+|+.|++.+=+ |.+- -..+|+
T Consensus        34 ~~~f~~~~~--~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ  109 (228)
T PF06239_consen   34 EELFERAPG--QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQ  109 (228)
T ss_pred             HHHHHHHhh--ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHH
Confidence            444554422  244899999999999855     7788888999999999999999999999998765 3221 111222


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          301 CMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       301 ~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      .+--               -|  -.+-+-|++++++|...|+-||..++..|++.+.+.+.
T Consensus       110 ~~F~---------------hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  110 AEFM---------------HY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHhc---------------cC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            2111               11  12345677777777777777777777777777765554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.70  E-value=0.001  Score=47.71  Aligned_cols=92  Identities=14%  Similarity=0.035  Sum_probs=42.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      ..+...+...|++++|..++++..+.... +...+..+...+...+++++|.+.++...+.. ..+..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDPD-NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHH
Confidence            33444445555555555555555443221 22344444445555555555555555544432 12223444444444555


Q ss_pred             CCHHHHHHHHHHHH
Q 039177          290 NNVEAGIKMIACME  303 (453)
Q Consensus       290 ~~~~~a~~~~~~m~  303 (453)
                      |+.+.|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            55555555544443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.70  E-value=0.049  Score=52.50  Aligned_cols=170  Identities=16%  Similarity=0.150  Sum_probs=89.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH-----
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITY-----  314 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-----  314 (453)
                      |....-.+..++.+.|.-++|.+.|-+.-.    |     .+.+..|...+++.+|.++-+...-    |.+.|.     
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~~~l----~qv~tliak~a  917 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQRFQL----PQVQTLIAKQA  917 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHhccc----hhHHHHHHHHH
Confidence            555556677777777777777766643211    2     2345566777777777766554332    222221     


Q ss_pred             ---------HHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCH----HHHHH-HHHHH----------HhcCCHHHHH
Q 039177          315 ---------NTLLQALCKVRELNRLRELVKEMKWK----GIVLNL----QTYSI-MIDGL----------ASKGDIIEAC  366 (453)
Q Consensus       315 ---------~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~----~~~~~-li~~~----------~~~g~~~~A~  366 (453)
                               .--|..+.+.|..-+|-+++.+|.++    +.+|-.    ....+ |+.-+          -++|..++|.
T Consensus       918 aqll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat  997 (1189)
T KOG2041|consen  918 AQLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDAT  997 (1189)
T ss_pred             HHHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhh
Confidence                     11245556666666666666666543    222211    11111 11111          1356667777


Q ss_pred             HHHHHHHHC-------CCCCChhhHHHHH--HHHHhCCCHHHHHHHHHHHhh-CCCCCCHHHHHHH
Q 039177          367 GLLEEALNK-------GLCTQSSMFDETI--CGLCQRGLVRKALELLKQMAD-KDVSPGARVWEAL  422 (453)
Q Consensus       367 ~~~~~m~~~-------~~~~~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~l  422 (453)
                      .+++.....       +.--....|.-+|  .--...|.++.|++.--.+.+ ..+-|....|..+
T Consensus       998 ~lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySll 1063 (1189)
T KOG2041|consen  998 DLLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLL 1063 (1189)
T ss_pred             hhhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHH
Confidence            655543221       1111123344444  334567889998887655555 3567777777765

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.68  E-value=0.0012  Score=58.65  Aligned_cols=132  Identities=13%  Similarity=0.038  Sum_probs=75.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING-LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA  320 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  320 (453)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+...|...... |.-.++.+.|..+|+...+. +..+...|...++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            356666777777777777777777776432 1223333333333 22245555577777776654 33455666666777


Q ss_pred             HHhcCCHHHHHHHHHHHHHC-CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          321 LCKVRELNRLRELVKEMKWK-GIVL-NLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      +.+.++.+.|..+|+..... .... ....|...++-=.+.|+++.+.++.+++.+.
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            77777777777777776655 1111 2236677777666777777777777666653

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.66  E-value=0.0029  Score=47.97  Aligned_cols=12  Identities=0%  Similarity=0.238  Sum_probs=4.3

Q ss_pred             cCCHHHHHHHHH
Q 039177          324 VRELNRLRELVK  335 (453)
Q Consensus       324 ~~~~~~a~~~~~  335 (453)
                      .|+.++|...++
T Consensus        89 ~~~~~~A~~~~~  100 (119)
T TIGR02795        89 LGDKEKAKATLQ  100 (119)
T ss_pred             hCChHHHHHHHH
Confidence            333333333333

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.65  E-value=0.0016  Score=57.85  Aligned_cols=144  Identities=14%  Similarity=0.159  Sum_probs=104.0

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNG-VIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      .+|..+|+..-+.+..+.|..+|.+.++.+. .+...|-..... |...++.+.|..+|+...+. +..+...|...+..
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR-CTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            4688899999999999999999999986532 233344433333 33357777799999998775 45677888999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDV----ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~  356 (453)
                      +.+.++.+.|..+|+..... + +..    ..|...++.=.+.|+++.+.++.+.+.+.  .|+......+++-|
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l-~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~ry  150 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-L-PKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-S-SCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh-c-CchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            99999999999999998875 3 333    48899999889999999999999888876  33434444444444

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.62  E-value=0.018  Score=51.40  Aligned_cols=93  Identities=17%  Similarity=0.147  Sum_probs=50.7

Q ss_pred             HHHHHHhc-CCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CcCHH-H
Q 039177          282 YINGLCKQ-NNVEAGIKMIACMEEL----GSKPD--VITYNTLLQALCKVRELNRLRELVKEMKWKGI-----VLNLQ-T  348 (453)
Q Consensus       282 li~~~~~~-~~~~~a~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----~p~~~-~  348 (453)
                      +...|... |++++|.+.|++..+.    | .+.  ..++..+...+.+.|++++|..+|+++.....     ..+.. .
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~  198 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEY  198 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHH
Confidence            33345555 6777777777665532    2 111  23556666777777777777777777766432     12222 2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          349 YSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       349 ~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |-..+-++...|+...|.+.|++....
T Consensus       199 ~l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  199 FLKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            223344555567777777777776544

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.60  E-value=0.0024  Score=48.47  Aligned_cols=95  Identities=12%  Similarity=-0.018  Sum_probs=43.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCC--cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CChhhHHHHHHH
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIV--LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLC--TQSSMFDETICG  390 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~li~~  390 (453)
                      ..+...+.+.|++++|...|..+......  .....+..+..++.+.|+++.|...|+.+......  .....+..+...
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            34444445555555555555555443211  01233444555555555555555555555443111  112234444445


Q ss_pred             HHhCCCHHHHHHHHHHHhh
Q 039177          391 LCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       391 ~~~~g~~~~A~~~~~~m~~  409 (453)
                      +.+.|+.++|...++++.+
T Consensus        86 ~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHhCChHHHHHHHHHHHH
Confidence            5555555555555555553

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.57  E-value=0.00018  Score=50.85  Aligned_cols=20  Identities=25%  Similarity=0.318  Sum_probs=8.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 039177          352 MIDGLASKGDIIEACGLLEE  371 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~  371 (453)
                      +..+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444444433

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.54  E-value=0.0076  Score=47.27  Aligned_cols=97  Identities=8%  Similarity=-0.011  Sum_probs=62.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      ......+..-+...|++++|.++|+.+....+. +..-|-.|..++-..|++.+|+..|....... +.|...+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            334445555566677777777777777665444 55556666666667777777777777766655 2455566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~  304 (453)
                      +...|+.+.|.+.|+..+.
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777777777777766554

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.54  E-value=0.00019  Score=50.73  Aligned_cols=81  Identities=23%  Similarity=0.194  Sum_probs=61.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHH
Q 039177          289 QNNVEAGIKMIACMEELGSK-PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG  367 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  367 (453)
                      .|+++.|+.+++.+.+.... ++...+-.+..+|.+.|++++|..+++. .+.+.. +....-.+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            58899999999999986532 2445566689999999999999999988 333222 33445566889999999999999


Q ss_pred             HHHH
Q 039177          368 LLEE  371 (453)
Q Consensus       368 ~~~~  371 (453)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9976

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.53  E-value=0.0029  Score=49.53  Aligned_cols=93  Identities=8%  Similarity=-0.053  Sum_probs=59.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG  360 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  360 (453)
                      .+-..+...|++++|..+|+.+...... +..-|-.|..+|-..|++++|+..|.......+. |+..+-.+..++...|
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG  117 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcC
Confidence            3444456677777777777776663321 3345556666666677777777777776666654 6666666777777777


Q ss_pred             CHHHHHHHHHHHHHC
Q 039177          361 DIIEACGLLEEALNK  375 (453)
Q Consensus       361 ~~~~A~~~~~~m~~~  375 (453)
                      +.+.|.+.|+..+..
T Consensus       118 ~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        118 NVCYAIKALKAVVRI  132 (157)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            777777777666544

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.51  E-value=0.0038  Score=57.58  Aligned_cols=89  Identities=9%  Similarity=-0.014  Sum_probs=47.6

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 039177          214 RSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE  293 (453)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  293 (453)
                      ..+...|++++|++.|++..+.... +...|..+..+|...|++++|+..++..++.. +.+...|..+..+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3344455555555555555554333 44455555555555566666665555555533 123444555555555556666


Q ss_pred             HHHHHHHHHHH
Q 039177          294 AGIKMIACMEE  304 (453)
Q Consensus       294 ~a~~~~~~m~~  304 (453)
                      +|...|+...+
T Consensus        88 eA~~~~~~al~   98 (356)
T PLN03088         88 TAKAALEKGAS   98 (356)
T ss_pred             HHHHHHHHHHH
Confidence            66665555555

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.50  E-value=0.01  Score=48.61  Aligned_cols=62  Identities=15%  Similarity=-0.052  Sum_probs=30.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPD--IVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344555555555555555555555554322211  23444444455555555555555554444

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.50  E-value=0.029  Score=50.05  Aligned_cols=129  Identities=9%  Similarity=0.021  Sum_probs=64.9

Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHHHH----CCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----CCHH
Q 039177          244 YTMVLNGVIVQ-EDYVKAEELFDELLV----LGLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSK-----PDVI  312 (453)
Q Consensus       244 ~~~ll~~~~~~-g~~~~a~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~  312 (453)
                      +..+...|-.. |+++.|++.|.+..+    .|... -...+..+...+.+.|++++|.++|+++...-..     .+..
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            33444455555 677777777776543    22100 1223455666677777777777777777654322     1111


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCcC--HHHHHHHHHHHHh--cCCHHHHHHHHHHH
Q 039177          313 -TYNTLLQALCKVRELNRLRELVKEMKWKG--IVLN--LQTYSIMIDGLAS--KGDIIEACGLLEEA  372 (453)
Q Consensus       313 -~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~p~--~~~~~~li~~~~~--~g~~~~A~~~~~~m  372 (453)
                       .|-..+-++...|++..|.+.++......  +..+  ......||.+|-.  ...++.|+.-|+.+
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence             22233335556677777777777766542  2212  3345555666543  22344444444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.48  E-value=0.0073  Score=49.42  Aligned_cols=89  Identities=12%  Similarity=-0.145  Sum_probs=56.4

Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC--hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG--MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      ..+..+...+...|+.  ++|...|++..+....+.  ...+..+...+.+.|++++|+..+++..+.... +...+..+
T Consensus        36 ~~~~~lg~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         36 FVYYRDGMSAQADGEY--AEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHcCCH--HHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            3556666666777777  777777777765532221  346777777777778888887777777765332 45555556


Q ss_pred             HHHHHhcCCHHHHH
Q 039177          248 LNGVIVQEDYVKAE  261 (453)
Q Consensus       248 l~~~~~~g~~~~a~  261 (453)
                      ...+...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66666666654444

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.48  E-value=0.022  Score=47.98  Aligned_cols=180  Identities=11%  Similarity=0.099  Sum_probs=97.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIK--PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                      +-.....+.+.|++.+|.+.|+.+...-+.  --....-.++.++.+.|+++.|...++++++.-.......+...+.+.
T Consensus         8 lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~   87 (203)
T PF13525_consen    8 LYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGL   87 (203)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHH
Confidence            334456667788888888888888765221  123345567778888888888888888887643221222223233222


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPD-------VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~-------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      +.........       .  ...|       ...+..++.-|-...-..+|...+..+...    =...--.+..-|.+.
T Consensus        88 ~~~~~~~~~~-------~--~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~  154 (203)
T PF13525_consen   88 SYYKQIPGIL-------R--SDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKR  154 (203)
T ss_dssp             HHHHHHHHHH----------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCT
T ss_pred             HHHHhCccch-------h--cccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHc
Confidence            2111111110       0  0111       124555666666666666666665555443    111122356678888


Q ss_pred             CCHHHHHHHHHHHHHC--CCCCChhhHHHHHHHHHhCCCHHHHH
Q 039177          360 GDIIEACGLLEEALNK--GLCTQSSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       360 g~~~~A~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~A~  401 (453)
                      |.+..|..-++.+.+.  +..........++.+|.+.|..+.+.
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            8888888888888776  21112234566677888888776443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.47  E-value=0.0016  Score=56.09  Aligned_cols=100  Identities=15%  Similarity=0.127  Sum_probs=80.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      -..+.+++.+|++.|.+.++... -|.+.|..=..+|++.|.++.|.+=.+..+..+.. ...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~-yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPH-YSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChH-HHHHHHHHHHHHHccCcHHH
Confidence            35678999999999999998542 26777888889999999999999888888777444 55789999999999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHH
Q 039177          365 ACGLLEEALNKGLCTQSSMFDETI  388 (453)
Q Consensus       365 A~~~~~~m~~~~~~~~~~~~~~li  388 (453)
                      |++.|++..+  +.|+..+|..=+
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHH
Confidence            9999988876  467777654433

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.46  E-value=0.043  Score=46.51  Aligned_cols=140  Identities=13%  Similarity=0.097  Sum_probs=69.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH-----
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMID-----  354 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~-----  354 (453)
                      +.++......+.+.-...++.++++....-++...+.|.+.-.+.|+.+.|...|++..+..-+.|..+.+.++.     
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            444455555555555555565555544444555555566666666666666666665554432333333333322     


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHH
Q 039177          355 GLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEAL  422 (453)
Q Consensus       355 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  422 (453)
                      .|.-.+++..|...+.++...+ ..+....|.-.-+..-.|+..+|++.++.|.  .+.|...+-+++
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~--~~~P~~~l~es~  325 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMV--QQDPRHYLHESV  325 (366)
T ss_pred             heecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHh--ccCCccchhhhH
Confidence            2334455555666665555443 2222222322333334456666666666665  334544444433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.42  E-value=0.0048  Score=50.31  Aligned_cols=61  Identities=7%  Similarity=-0.135  Sum_probs=27.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKP--DVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ..+...+...|++++|...|+........+  ...++..+...|...|++++|+..++.....
T Consensus        39 ~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         39 YRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            334444444455555555555444322111  1124444445555555555555555554443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.30  E-value=0.012  Score=48.00  Aligned_cols=96  Identities=14%  Similarity=-0.063  Sum_probs=72.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVL--NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETI  388 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  388 (453)
                      ...|..+...+...|++++|...|+........+  ...++..+...|...|++++|...++...... +.....+..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4567778888889999999999999998764333  23578899999999999999999999988753 22344455666


Q ss_pred             HHHH-------hCCCHHHHHHHHHHH
Q 039177          389 CGLC-------QRGLVRKALELLKQM  407 (453)
Q Consensus       389 ~~~~-------~~g~~~~A~~~~~~m  407 (453)
                      ..+.       ..|++++|...+++.
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            6666       778888666555543

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.29  E-value=0.23  Score=49.52  Aligned_cols=53  Identities=11%  Similarity=0.060  Sum_probs=27.2

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD  224 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  224 (453)
                      |..|...+-..|.+.+..  +++..+|+......  |+......+-.+|++.+.+.+
T Consensus        76 D~~tLq~l~~~y~d~~~~--d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   76 DDLTLQFLQNVYRDLGKL--DEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             chHHHHHHHHHHHHHhhh--hHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHH
Confidence            444555555555555555  55555555544432  444444445555555555443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.28  E-value=0.028  Score=54.39  Aligned_cols=143  Identities=13%  Similarity=0.066  Sum_probs=88.4

Q ss_pred             CCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhc--------CCHHHHHHHHHHH
Q 039177          272 LVPDVYTYNVYINGLCKQ-----NNVEAGIKMIACMEELGSKPDV-ITYNTLLQALCKV--------RELNRLRELVKEM  337 (453)
Q Consensus       272 ~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~--------~~~~~a~~~~~~~  337 (453)
                      .+.+...|..++.+....     +..+.|..+|++..+.  .|+- ..|..+..+|...        +++..+.+.....
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            345667777777764432     2266777778777774  3553 2333333333221        1223333333333


Q ss_pred             HHC-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          338 KWK-GIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       338 ~~~-~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      ... ....+...|.++...+...|++++|...+++....+  |+...|..+...+...|+.++|.+.+++..  .+.|..
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~--~L~P~~  486 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAF--NLRPGE  486 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--hcCCCC
Confidence            332 123355677777666667789999999998888765  566778888888888999999998888876  345554


Q ss_pred             HHHH
Q 039177          417 RVWE  420 (453)
Q Consensus       417 ~~~~  420 (453)
                      .||.
T Consensus       487 pt~~  490 (517)
T PRK10153        487 NTLY  490 (517)
T ss_pred             chHH
Confidence            4443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.27  E-value=0.031  Score=42.15  Aligned_cols=104  Identities=11%  Similarity=0.057  Sum_probs=52.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----hhhHHHHHHH
Q 039177          212 VIRSLVKKEKVFDALGILNQMKSDGIKPD--IVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD----VYTYNVYING  285 (453)
Q Consensus       212 li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~----~~~~~~li~~  285 (453)
                      +..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..++++.....  |+    ......+..+
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHH
Confidence            34455556666666666666666554432  2233445555666666666666666655432  22    1111222234


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      +...|+.++|.+.+-....    ++...|.--|..|
T Consensus        85 L~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~y  116 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALA----ETLPRYRRAIRFY  116 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            4556666666666544443    2333444444444

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.21  E-value=0.046  Score=52.96  Aligned_cols=35  Identities=9%  Similarity=-0.019  Sum_probs=20.0

Q ss_pred             CCcChhhHHHHHHHHHhcC-----ChhHHHHHHHHHHhCC
Q 039177          202 FCFGMVDYTNVIRSLVKKE-----KVFDALGILNQMKSDG  236 (453)
Q Consensus       202 ~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~  236 (453)
                      .+.+...|...+.+.....     ..+.|..+|++..+..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld  372 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE  372 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC
Confidence            3455666666666544322     2556777777776653

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.17  E-value=0.035  Score=52.99  Aligned_cols=228  Identities=12%  Similarity=0.063  Sum_probs=127.1

Q ss_pred             CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHH
Q 039177           75 NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAI  154 (453)
Q Consensus        75 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~  154 (453)
                      .+.|.+..+..-+-.+...|.+++|.++-       +......-|.-|......+-+++-|++.|.++...   .+-+-+
T Consensus       551 ~i~~~evp~~~~m~q~Ieag~f~ea~~ia-------clgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl---~~L~li  620 (1081)
T KOG1538|consen  551 SISAVEVPQSAPMYQYIERGLFKEAYQIA-------CLGVTDTDWRELAMEALEALDFETARKAYIRVRDL---RYLELI  620 (1081)
T ss_pred             eeecccccccccchhhhhccchhhhhccc-------ccceecchHHHHHHHHHhhhhhHHHHHHHHHHhcc---HHHHHH
Confidence            35566666777777788888888776543       22333446777777777888889999888876653   344444


Q ss_pred             HHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHH--
Q 039177          155 EILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQM--  232 (453)
Q Consensus       155 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m--  232 (453)
                      .-++++.+.|-.|+....   ...|+-.|.+  .+|.++|.+   .|.+      |..+.+|.....++.|.+++..-  
T Consensus       621 ~EL~~~k~rge~P~~iLl---A~~~Ay~gKF--~EAAklFk~---~G~e------nRAlEmyTDlRMFD~aQE~~~~g~~  686 (1081)
T KOG1538|consen  621 SELEERKKRGETPNDLLL---ADVFAYQGKF--HEAAKLFKR---SGHE------NRALEMYTDLRMFDYAQEFLGSGDP  686 (1081)
T ss_pred             HHHHHHHhcCCCchHHHH---HHHHHhhhhH--HHHHHHHHH---cCch------hhHHHHHHHHHHHHHHHHHhhcCCh
Confidence            556778888888887643   3345667777  788887743   4422      23445555555555555544221  


Q ss_pred             ----------HhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH------HHHCCCC---CChhhHHHHHHHHHhcCC
Q 039177          233 ----------KSD--GIKPDIVCYTMVLNGVIVQEDYVKAEELFDE------LLVLGLV---PDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       233 ----------~~~--~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~------m~~~g~~---~~~~~~~~li~~~~~~~~  291 (453)
                                .+.  .++..    .+....+...|+.++|..+.-+      +.+-+.+   .+..+...+...+.+...
T Consensus       687 ~eKKmL~RKRA~WAr~~keP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~  762 (1081)
T KOG1538|consen  687 KEKKMLIRKRADWARNIKEP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDS  762 (1081)
T ss_pred             HHHHHHHHHHHHHhhhcCCc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccc
Confidence                      110  11100    1233344455666666544321      1111111   223333333333444555


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          292 VEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       292 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                      +..|-++|..|-.         ...+++.....+++++|..+-+...+
T Consensus       763 ~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  763 PGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             cchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCcc
Confidence            6666666666543         23455666666777777666554443

>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=97.17  E-value=0.0015  Score=43.96  Aligned_cols=50  Identities=20%  Similarity=0.188  Sum_probs=22.7

Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          324 VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       324 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .|++++|..+|+.+....+. +...+..+..+|.+.|++++|.++++.+..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444444444444444333 444444444444444444444444444443

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.15  E-value=0.033  Score=42.06  Aligned_cols=89  Identities=18%  Similarity=0.010  Sum_probs=44.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--cCHHHHHHHHHHHHhc
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPD--VITYNTLLQALCKVRELNRLRELVKEMKWKGIV--LNLQTYSIMIDGLASK  359 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~li~~~~~~  359 (453)
                      .++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..+++........  .+......+..++...
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            344555666666666666666554432  124444555556666666666666655544211  0112222233344555


Q ss_pred             CCHHHHHHHHHHH
Q 039177          360 GDIIEACGLLEEA  372 (453)
Q Consensus       360 g~~~~A~~~~~~m  372 (453)
                      |+.++|+..+-..
T Consensus        89 gr~~eAl~~~l~~  101 (120)
T PF12688_consen   89 GRPKEALEWLLEA  101 (120)
T ss_pred             CCHHHHHHHHHHH
Confidence            6666666655443

>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=0.0025  Score=42.80  Aligned_cols=53  Identities=11%  Similarity=0.209  Sum_probs=46.4

Q ss_pred             HhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccC
Q 039177           91 AENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKF  145 (453)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  145 (453)
                      .+.|++++|..+|+.+....  +.+..++..+..+|.+.|++++|..+++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46799999999999999874  668889999999999999999999999997653

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.14  E-value=0.016  Score=50.04  Aligned_cols=102  Identities=16%  Similarity=0.105  Sum_probs=74.1

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 039177          214 RSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE  293 (453)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  293 (453)
                      .-+.+.+++++|+..|.+..+..+. |.+-|..=..+|++.|.++.|++-.+..+... +....+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHH
Confidence            4556778888888888888876544 77777777788888888888887777766643 223567788888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          294 AGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       294 ~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      +|.+.|+..++  +.|+..+|-.=+.
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHHHHHH
Confidence            88888887777  5577665544333

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.09  E-value=0.11  Score=41.84  Aligned_cols=125  Identities=15%  Similarity=0.060  Sum_probs=68.2

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCcCHHHH
Q 039177          273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKG---IVLNLQTY  349 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~  349 (453)
                      -|++..--.+..+..+.|+..+|...|++...--..-|....-.+.++....++...|...++.+-+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            355555555666666666666666666666553344455566666666666666666666666665542   2233  23


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHH
Q 039177          350 SIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  401 (453)
                      -.+.+.|...|+..+|...|+.....-  |+...-......+.+.|+.+++.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~y--pg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYY--PGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhC--CCHHHHHHHHHHHHHhcchhHHH
Confidence            345556666666666666666665542  22222111233344555544443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.06  E-value=0.0035  Score=41.61  Aligned_cols=51  Identities=16%  Similarity=0.099  Sum_probs=20.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      +.+.|++++|...|+.+++..+. +...+..+..++...|++++|...|+++
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a   57 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERA   57 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444444444444443322 3333344444444444444444444443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.05  E-value=0.0041  Score=41.30  Aligned_cols=56  Identities=14%  Similarity=0.162  Sum_probs=33.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ...+.+.|++++|++.|+.+.+..+. +...+..+..++...|++++|...|+++++
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44556666666666666666665433 555666666666666666666666666654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.03  E-value=0.052  Score=47.22  Aligned_cols=111  Identities=14%  Similarity=0.048  Sum_probs=61.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK---GDIIEACGLLEEALNKGLCTQSSMFDE  386 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~~~~~~~~~~~~  386 (453)
                      |...|-.|...|...|+++.|..-|....+...+ +...+..+..++...   ....++..+|+++...+ ..+......
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            5556666666666666666666666666665222 344444444433322   12345666666666654 334445555


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHh
Q 039177          387 TICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLL  424 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~  424 (453)
                      |...+...|++.+|...|+.|.  +..|....+..+|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL--~~lp~~~~rr~~ie  268 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLL--DLLPADDPRRSLIE  268 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHH--hcCCCCCchHHHHH
Confidence            5566666666666666666666  33454455555554

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.97  E-value=0.38  Score=46.77  Aligned_cols=221  Identities=11%  Similarity=0.049  Sum_probs=126.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC------------------------CCcHHHHHHHHHHHHHCCCccC
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR------------------------INRVGFAIEILNCMINDGFCVD  168 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------------------~~~~~~a~~~~~~m~~~~~~p~  168 (453)
                      .|.+..|..+.......-.++-|...|-+.....                        -|.+++|.++|-+|-++.    
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrD----  764 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRD----  764 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhh----
Confidence            4666677777666666666666666665543322                        356666666665554432    


Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG----MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCY  244 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  244 (453)
                           ..+..+.+.|++  -.+.+++   ..-|-..|    ...|+.+...++....+++|.+.|..-..      .   
T Consensus       765 -----LAielr~klgDw--frV~qL~---r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~------~---  825 (1189)
T KOG2041|consen  765 -----LAIELRKKLGDW--FRVYQLI---RNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD------T---  825 (1189)
T ss_pred             -----hhHHHHHhhhhH--HHHHHHH---HccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc------h---
Confidence                 223444555555  3333332   22111111    24577777777777777777777765432      1   


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          245 TMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       245 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                      ...+.++.+..++++-+.+...+     +.+....-.+..++.+.|.-++|.+.|-+...    |.     ..+..|...
T Consensus       826 e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----pk-----aAv~tCv~L  891 (1189)
T KOG2041|consen  826 ENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRSL----PK-----AAVHTCVEL  891 (1189)
T ss_pred             HhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhccC----cH-----HHHHHHHHH
Confidence            23566666666666655554443     34566677788888888888888877654332    22     345667777


Q ss_pred             CCHHHHHHHHHHHHHCCCCcCHHHH--------------HHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          325 RELNRLRELVKEMKWKGIVLNLQTY--------------SIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       325 ~~~~~a~~~~~~~~~~~~~p~~~~~--------------~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +++.+|.++-+...-.    ...+.              ---|..+.+.|+.-+|-+++.+|.+
T Consensus       892 nQW~~avelaq~~~l~----qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  892 NQWGEAVELAQRFQLP----QVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHHHHHHHHhccch----hHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            7787777765533221    11111              1124556677877777777777754

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.96  E-value=0.0053  Score=41.32  Aligned_cols=58  Identities=19%  Similarity=0.076  Sum_probs=23.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC-CHHHHHHHHHHH
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG-DIIEACGLLEEA  372 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m  372 (453)
                      |..+...+.+.|++++|+..|...++.... +...|..+..+|...| ++++|++.|++.
T Consensus         6 ~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~a   64 (69)
T PF13414_consen    6 WYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKA   64 (69)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence            333444444444444444444444443222 3333444444444444 344444444433

...

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.93  E-value=0.028  Score=42.85  Aligned_cols=51  Identities=10%  Similarity=0.053  Sum_probs=30.6

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHH
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~li~~~~  357 (453)
                      ..|+..+..+++.+|+..+++..|.++.+...+. ++..+...|..|+.-..
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            4466666666666666666666666666665554 55555566666665443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=96.93  E-value=0.016  Score=44.13  Aligned_cols=96  Identities=20%  Similarity=0.272  Sum_probs=61.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETIC  389 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  389 (453)
                      |..++..+|.++++.|+++....+.+..=  |+.++...         ..+.         --....+.|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            44567777777777777777766665332  22221100         0000         0112356778888888888


Q ss_pred             HHHhCCCHHHHHHHHHHHhh-CCCCCCHHHHHHHHhc
Q 039177          390 GLCQRGLVRKALELLKQMAD-KDVSPGARVWEALLLS  425 (453)
Q Consensus       390 ~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~a  425 (453)
                      +|+..|++..|+++++...+ .++..+..+|..|+.=
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            88888888888888888765 5777778888887764

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.88  E-value=0.26  Score=42.78  Aligned_cols=175  Identities=10%  Similarity=0.051  Sum_probs=111.8

Q ss_pred             HHHHhcCCCChHHHHHHHHHHHHcCCCcChhh---HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039177          177 SSVCEQRDLSSDELLGFVQEMKKLGFCFGMVD---YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV  253 (453)
Q Consensus       177 ~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  253 (453)
                      ..+...|+.  ++|.+.|+.+...- +-+...   .-.++.+|.+.+++++|...+++..+..+.-...-|...+.+.+.
T Consensus        40 ~~~~~~g~y--~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         40 QQKLQDGNW--KQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHCCCH--HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            334667888  89999999998864 222222   245678889999999999999999886443333344444444432


Q ss_pred             --cC---------------CH---HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 039177          254 --QE---------------DY---VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVIT  313 (453)
Q Consensus       254 --~g---------------~~---~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  313 (453)
                        .+               +.   .+|...|+.+++               -|=.+.-..+|...+..+...   .- ..
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~---------------~yP~S~ya~~A~~rl~~l~~~---la-~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVR---------------GYPNSQYTTDATKRLVFLKDR---LA-KY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHH---------------HCcCChhHHHHHHHHHHHHHH---HH-HH
Confidence              11               11   233344444443               333334455555544444331   01 11


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWK--GIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      --.+...|.+.|.+..|..-++.+++.  +..........++.+|...|..++|.+....+.
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            125667788999999999999999886  444456677788899999999999988877654

>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=96.86  E-value=0.0083  Score=47.58  Aligned_cols=57  Identities=19%  Similarity=0.258  Sum_probs=24.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      ..++..+...|++++|..+...+....+. +...|..+|.+|...|+..+|.+.|+.+
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            33334444444444444444444444333 4444444444444444444444444444

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.83  E-value=0.0065  Score=40.87  Aligned_cols=61  Identities=15%  Similarity=0.121  Sum_probs=30.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE-DYVKAEELFDELL  268 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~  268 (453)
                      .+|..+...+.+.|++++|+..|++..+.... +...|..+..++...| ++++|++.++..+
T Consensus         4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    4 EAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            34445555555555555555555555544322 4444445555555555 4555555555444

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.71  E-value=0.32  Score=41.49  Aligned_cols=131  Identities=11%  Similarity=0.036  Sum_probs=72.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-----H
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTL-----L  318 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-----i  318 (453)
                      .+.++..+.-.|.+.-....+.+.++...+.++.....+.+.-.+.|+.+.|...|+...+..-+.|..+++.+     .
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34455555555666666666666666554455566666666666666666666666655543333333333322     2


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          319 QALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ..|.-.+++..|...+.++...+.. |....|.-.-+..-.|+..+|++.++.|.+.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            3344556666666666666665433 4433333333333346777777777777654

>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=96.68  E-value=0.015  Score=46.08  Aligned_cols=71  Identities=20%  Similarity=0.266  Sum_probs=35.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-----CCCCCCHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD-----KDVSPGARVW  419 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~  419 (453)
                      +...++..+...|++++|..+.+.+...+ +.+...|..+|.+|...|+..+|.++|+++..     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34445555555666666666666655544 33455566666666666666666665555432     2555555543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.67  E-value=0.057  Score=47.29  Aligned_cols=96  Identities=14%  Similarity=0.017  Sum_probs=49.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--cCHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV----ITYNTLLQALCKVRELNRLRELVKEMKWKGIV--LNLQTYSI  351 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--p~~~~~~~  351 (453)
                      .|...+..+.+.|++++|...|+.+.+.-  |+.    ..+-.+...|...|++++|...|..+.+.-..  .....+-.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34444444445566666666666665532  322    34455555666666666666666666543111  12233333


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          352 MIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555556666666666655544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.67  E-value=0.5  Score=43.27  Aligned_cols=77  Identities=12%  Similarity=-0.015  Sum_probs=40.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDG---IKPDIVCYTMVLNGVIV---QEDYVKAEELFDELLVLGLVPDVYTYNVYI  283 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~---~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  283 (453)
                      ..++-+|....+++..+++++.+...-   +.-....--...-++.+   .|+.++|++++..++...-.++..+|..+.
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            344445666667777777777666531   11011111122233444   566666666666654444455666665555


Q ss_pred             HHH
Q 039177          284 NGL  286 (453)
Q Consensus       284 ~~~  286 (453)
                      ..|
T Consensus       225 RIy  227 (374)
T PF13281_consen  225 RIY  227 (374)
T ss_pred             HHH
Confidence            544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.67  E-value=0.28  Score=41.28  Aligned_cols=174  Identities=9%  Similarity=-0.027  Sum_probs=99.6

Q ss_pred             HHHhcCCCChHHHHHHHHHHHHcC--CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 039177          178 SVCEQRDLSSDELLGFVQEMKKLG--FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE  255 (453)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  255 (453)
                      .+...|+.  .+|.+.|+.+...-  -+......-.++.++.+.|+++.|...+++..+.-+.-...-+...+.+.+...
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 EALQQGDY--EEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHCT-H--HHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHCCCH--HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            35677887  89999999988763  122234466778899999999999999999887533322223333333332211


Q ss_pred             CHHHHHHHHHHHHHCCCCCC-------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 039177          256 DYVKAEELFDELLVLGLVPD-------VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELN  328 (453)
Q Consensus       256 ~~~~a~~~~~~m~~~g~~~~-------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~  328 (453)
                      ......       .  ...|       ...+..++.-|=.+....+|...+..+.+.   . ...--.+...|.+.|.+.
T Consensus        92 ~~~~~~-------~--~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---l-a~~e~~ia~~Y~~~~~y~  158 (203)
T PF13525_consen   92 QIPGIL-------R--SDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---L-AEHELYIARFYYKRGKYK  158 (203)
T ss_dssp             HHHHHH----------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---H-HHHHHHHHHHHHCTT-HH
T ss_pred             hCccch-------h--cccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---H-HHHHHHHHHHHHHcccHH
Confidence            111110       0  0011       223444555555556666666655555431   0 111223567889999999


Q ss_pred             HHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          329 RLRELVKEMKWK--GIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       329 ~a~~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      .|..-++.+++.  +..........++.+|.+.|..+.|.
T Consensus       159 aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  159 AAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            999999998887  22223345677888898888887554

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.66  E-value=0.53  Score=43.40  Aligned_cols=145  Identities=15%  Similarity=0.193  Sum_probs=102.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH-HHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELG-SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTY-SIMI  353 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~li  353 (453)
                      ..+|...|++-.+..-++.|..+|-++.+.| +.+++..++++|.-++. |+...|.++|+.-..+  -||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3456777777777778899999999999888 56777888888887765 6778888888866555  2243333 4455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch
Q 039177          354 DGLASKGDIIEACGLLEEALNKGLCTQ--SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSS  426 (453)
Q Consensus       354 ~~~~~~g~~~~A~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~  426 (453)
                      .-+...++-..|..+|+....+ +..+  ..+|..+|.--..-|+...+..+=+.|.+  +.|-..+...+.+-|
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            5666778888999999865543 1112  45788888888888888888887777763  355555555554444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.62  E-value=0.55  Score=43.02  Aligned_cols=81  Identities=16%  Similarity=0.063  Sum_probs=43.5

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC---CCcChhhHHHHHHHHHh---cCChhHHHHHHHHHHhCCCCCCHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG---FCFGMVDYTNVIRSLVK---KEKVFDALGILNQMKSDGIKPDIV  242 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~  242 (453)
                      ..+...++-+|....++  +...++.+.+...-   +.-+..+-....-++.+   .|+.++|++++..+....-.++..
T Consensus       141 ~div~~lllSyRdiqdy--damI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d  218 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDY--DAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPD  218 (374)
T ss_pred             hhHHHHHHHHhhhhhhH--HHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChH
Confidence            33445555566666666  66666666665541   11122222334444445   666777777776655444455666


Q ss_pred             HHHHHHHHH
Q 039177          243 CYTMVLNGV  251 (453)
Q Consensus       243 ~~~~ll~~~  251 (453)
                      +|..+.+.|
T Consensus       219 ~~gL~GRIy  227 (374)
T PF13281_consen  219 TLGLLGRIY  227 (374)
T ss_pred             HHHHHHHHH
Confidence            666555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.62  E-value=0.054  Score=47.43  Aligned_cols=94  Identities=10%  Similarity=-0.012  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV----YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD----VITY  314 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~  314 (453)
                      .|...+..+.+.|++++|...|+.+++..  |+.    ..+-.+...|...|++++|...|+.+.+.-  |+    ...+
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~y--P~s~~~~dAl  220 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNY--PKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCCcchhHHH
Confidence            34444444455567777777777766643  332    345556666667777777777777666532  22    2234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      -.+...+...|+.++|..+|+.+.+.
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44455566667777777777766665

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.59  E-value=0.53  Score=42.56  Aligned_cols=111  Identities=18%  Similarity=0.178  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      .+.+..|.-+...|+...|.++-.+..    .|+...|-..+.+++..+++++..++-..      +-++.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            345556667777888888888776663    37888888888999999998877765432      12446788888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      .+.|+..+|..+...+          .+..-+..|.++|++.+|.+.--+.
T Consensus       248 ~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHHc
Confidence            8888888888877651          1245677888888888887765443

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

>PRK15331 chaperone protein SicA; Provisional

Probab=96.59  E-value=0.1  Score=41.26  Aligned_cols=87  Identities=6%  Similarity=-0.137  Sum_probs=53.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +...|++++|..+|..+...+.. +..-+..|..+|-..+++++|...|......+.. |+..+--...+|...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            45667777777777766654432 4445556666666667777777777665554332 333344556666667777777


Q ss_pred             HHHHHHHHH
Q 039177          366 CGLLEEALN  374 (453)
Q Consensus       366 ~~~~~~m~~  374 (453)
                      ...|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            777766655

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.52  E-value=0.35  Score=42.26  Aligned_cols=102  Identities=14%  Similarity=0.077  Sum_probs=78.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCCCcCHHHH
Q 039177          273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV---RELNRLRELVKEMKWKGIVLNLQTY  349 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~~p~~~~~  349 (453)
                      +-|...|-.|..+|...|+.+.|..-|....+.. .++...+..+..++...   ....++..+|+++++.+.. |..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            4578889999999999999999999998887743 23555666666655433   2356788899999888666 77777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          350 SIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      ..|...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            888888889999999999999998764

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.51  E-value=0.16  Score=47.11  Aligned_cols=65  Identities=8%  Similarity=-0.019  Sum_probs=54.7

Q ss_pred             CCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCH---HHHHHHHHHHHhcCChhHHHHHHhhcc
Q 039177           77 EPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPE---FIFIDLIKTYADAHRFQDSVNLFYKIP  143 (453)
Q Consensus        77 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~  143 (453)
                      +.+...+..+..+|.+.|++++|+..|+...+..  +.+.   ..|..+..+|...|++++|+..+++..
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrAL  139 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTAL  139 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3467788889999999999999999999998773  2233   469999999999999999999988743

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.40  E-value=0.028  Score=38.22  Aligned_cols=54  Identities=17%  Similarity=0.112  Sum_probs=28.8

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          215 SLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      .|.+.+++++|+++++.+...++. +...|.....++.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            445555555555555555554333 444455555555555555555555555554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.29  E-value=0.22  Score=44.39  Aligned_cols=129  Identities=12%  Similarity=0.204  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh--cC----CHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHhcCC-
Q 039177          257 YVKAEELFDELLVLGLVPDVYTYNVYINGLCK--QN----NVEAGIKMIACMEELGS---KPDVITYNTLLQALCKVRE-  326 (453)
Q Consensus       257 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~~----~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~~-  326 (453)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ....+..+|+.|++.-.   .++...+..++..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            44566777888888887777666553333222  22    34567788888887542   2344556666544  3333 


Q ss_pred             ---HHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHHh-cCC--HHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          327 ---LNRLRELVKEMKWKGIVLNLQ-TYSIMIDGLAS-KGD--IIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       327 ---~~~a~~~~~~~~~~~~~p~~~-~~~~li~~~~~-~g~--~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                         .+.++.+|+.+.+.|+..+-. -+.+-|-++.. ...  ...+.++++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               345677777777766543322 22222222222 111  34677778888888877776665544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.22  E-value=0.025  Score=38.45  Aligned_cols=53  Identities=17%  Similarity=0.046  Sum_probs=22.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      |.+.+++++|.++++.+.+.++. +...|.....++.+.|++++|.+.|+...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            34444444444444444444333 333444444444444444444444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.20  E-value=0.057  Score=51.62  Aligned_cols=83  Identities=13%  Similarity=0.099  Sum_probs=46.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh-----------hH
Q 039177          211 NVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVY-----------TY  279 (453)
Q Consensus       211 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~-----------~~  279 (453)
                      .+..-+.+...+..|-++|..|-+.         ..++......+++.+|..+-+...+.  .+|+.           -|
T Consensus       752 ~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrF  820 (1081)
T KOG1538|consen  752 LCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRF  820 (1081)
T ss_pred             HHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhH
Confidence            3333344445555666666655421         24555666667777777666655442  23322           12


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      .-.-.+|.+.|+-.+|.++++++..
T Consensus       821 eEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  821 EEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHhhh
Confidence            3334556677777777777777654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.18  E-value=2  Score=44.77  Aligned_cols=251  Identities=15%  Similarity=0.145  Sum_probs=121.7

Q ss_pred             CCCHHHHHHHHHHHHhcC--ChhHHHHHHhhcccCC-CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHH--------Hh
Q 039177          113 ETPEFIFIDLIKTYADAH--RFQDSVNLFYKIPKFR-INRVGFAIEILNCMINDGFCVDGKTCSLILSSV--------CE  181 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~--------~~  181 (453)
                      .|+ .-...+|.+|++.+  .++.|+....++.... ....+++++.+-.+.     +....|+..|..|        ++
T Consensus       788 ~~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~~~~ad~al~hll~Lv-----dvn~lfn~ALgtYDl~Lal~VAq  861 (1265)
T KOG1920|consen  788 APD-KFNLFILTSYVKSNPPEIEEALQKIKELQLAQVAVSADEALKHLLFLV-----DVNELFNSALGTYDLDLALLVAQ  861 (1265)
T ss_pred             Ccc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHhcccchhHHHHHHHHHhhc-----cHHHHHHhhhcccchHHHHHHHH
Confidence            444 55667888888887  6777777766655311 233344444433332     2233444443332        11


Q ss_pred             cCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 039177          182 QRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAE  261 (453)
Q Consensus       182 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~  261 (453)
                      ..+.++.+-+-+++++.+.  +++..-  -.|+.|  .+++++|+.-+.++       +...|.-.++.--+.|.+.+|+
T Consensus       862 ~SqkDPkEyLP~L~el~~m--~~~~rk--F~ID~~--L~ry~~AL~hLs~~-------~~~~~~e~~n~I~kh~Ly~~aL  928 (1265)
T KOG1920|consen  862 KSQKDPKEYLPFLNELKKM--ETLLRK--FKIDDY--LKRYEDALSHLSEC-------GETYFPECKNYIKKHGLYDEAL  928 (1265)
T ss_pred             HhccChHHHHHHHHHHhhc--hhhhhh--eeHHHH--HHHHHHHHHHHHHc-------CccccHHHHHHHHhcccchhhh
Confidence            1111223444444443321  011000  011111  12334444333333       1223334444444555555555


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHH----HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          262 ELFDELLVLGLVPDVYTYNVYIN----GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       262 ~~~~~m~~~g~~~~~~~~~~li~----~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                      .++        .|+...+..+..    -+.....+++|--.|+..-+         ..-.+.+|-.+|+|.+|..+..++
T Consensus       929 ~ly--------~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql  991 (1265)
T KOG1920|consen  929 ALY--------KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQL  991 (1265)
T ss_pred             hee--------ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhh
Confidence            444        244444433333    33345556666555554432         123456777777777777777665


Q ss_pred             HHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          338 KWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       338 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ....-. -..+-..|+.-+...++.-+|-++..+....        +...+..|++...+++|..+...-.
T Consensus       992 ~~~~de-~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen  992 SEGKDE-LVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             cCCHHH-HHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            443111 1112255666777778887777777766432        2223556667777777777665543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.15  E-value=0.053  Score=46.48  Aligned_cols=102  Identities=17%  Similarity=0.134  Sum_probs=67.3

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC----------------HHHHH
Q 039177          238 KPDIVCYTMVLNGVIVQ-----EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN----------------VEAGI  296 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~----------------~~~a~  296 (453)
                      +.|..+|-..+..+...     +.++-....++.|.+.|+..|..+|+.|++.+=+-.-                -+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            44777777777777643     5666677777888888888888888888887654321                23456


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHH
Q 039177          297 KMIACMEELGSKPDVITYNTLLQALCKVRE-LNRLRELVKEMKW  339 (453)
Q Consensus       297 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~  339 (453)
                      +++++|...|+.||..+-..|++++++.+- ..+..++.-.|.+
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            666777777777777777777777766554 2344444444444

>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=96.09  E-value=0.022  Score=39.40  Aligned_cols=60  Identities=17%  Similarity=0.123  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWK----GIV-LN-LQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      +|+.+...|...|++++|+..|++..+.    |.. |+ ..++..+..+|...|++++|++.+++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4444445555555555555555544332    111 11 233444444444444444444444443

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.09  E-value=0.5  Score=36.98  Aligned_cols=125  Identities=19%  Similarity=0.187  Sum_probs=65.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ..++..+.+.+........++.+...+. .+....+.++..|++.+. .+....+..   .   .+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            4455555556666666666666665542 455566666666665432 333333331   1   1222334456666666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhC-CCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchh
Q 039177          360 GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQR-GLVRKALELLKQMADKDVSPGARVWEALLLSSV  427 (453)
Q Consensus       360 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~  427 (453)
                      +.++++.-++.++..         |...+..+... ++++.|.+++.+-      -+...|..++..+.
T Consensus        83 ~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       83 KLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             CcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            666666666655421         22223333333 6667776666652      14456666665543

>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=96.02  E-value=0.029  Score=38.74  Aligned_cols=61  Identities=20%  Similarity=0.182  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCC-hhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNK----GL-CTQ-SSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      .+++.+...|...|++++|+..|++..+.    |- .|+ ..++..+...|...|++++|++++++.
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555555555555555555555555432    10 111 234455555555555555555555554

...

>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=95.98  E-value=0.63  Score=37.28  Aligned_cols=125  Identities=19%  Similarity=0.132  Sum_probs=68.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHH
Q 039177          111 NFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDEL  190 (453)
Q Consensus       111 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a  190 (453)
                      +++++..++..+++.+.+.|++..-..                      ++..++-+|.......+-.+....    ..+
T Consensus        24 ~i~~~~~L~~lli~lLi~~~~~~~L~q----------------------llq~~Vi~DSk~lA~~LLs~~~~~----~~~   77 (167)
T PF07035_consen   24 NIPVQHELYELLIDLLIRNGQFSQLHQ----------------------LLQYHVIPDSKPLACQLLSLGNQY----PPA   77 (167)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHH----------------------HHhhcccCCcHHHHHHHHHhHccC----hHH
Confidence            566777777777777777776555443                      333455555555544443333221    222


Q ss_pred             HHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          191 LGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       191 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      .++=-+|.+.=    ...+..++..+...|++-+|+++.+.....    +......++.+..+.+|...-..+|+-+.+
T Consensus        78 ~Ql~lDMLkRL----~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   78 YQLGLDMLKRL----GTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHHHh----hhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            22222232220    124456667777788888888777665332    222334566777777776666666655554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.94  E-value=0.25  Score=44.93  Aligned_cols=83  Identities=12%  Similarity=-0.003  Sum_probs=47.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchh
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV  427 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~  427 (453)
                      ++..|..+|.+.+++..|++..++..+.+ ..|....-.=-.+|...|+++.|...|+++.  .+.|+......=|..|.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~--k~~P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKAL--KLEPSNKAARAELIKLK  335 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHH--HhCCCcHHHHHHHHHHH
Confidence            45556666666666666666666666654 3333333333456666666666666666666  44666555555555554


Q ss_pred             cchhhH
Q 039177          428 SKLDFV  433 (453)
Q Consensus       428 ~~~~~~  433 (453)
                      .+....
T Consensus       336 ~k~~~~  341 (397)
T KOG0543|consen  336 QKIREY  341 (397)
T ss_pred             HHHHHH
Confidence            444333

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.91  E-value=0.51  Score=35.68  Aligned_cols=136  Identities=14%  Similarity=0.205  Sum_probs=80.2

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHhcCCHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVIT---YNTLLQALCKVRELNR  329 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~~~~~~  329 (453)
                      -.|..++..++..+...+   .+..-+|.+|--....-+-+-..++++.+-+.   .|...   .-.++..|++.|.   
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDis~C~NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDISKCGNLKRVIECYAKRNK---   84 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-GGG-S-THHHHHHHHHTT----
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCchhhcchHHHHHHHHHhcc---
Confidence            457777888888877763   45666666666555555556666666655442   23321   1223333333332   


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                                     +..-....++.....|+-|.-.++..++.+. -.+++...-.+..+|.+.|+..++.+++.+..+
T Consensus        85 ---------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   85 ---------------LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             -----------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             ---------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence                           3334455667777888888888888887653 367777778888899999999999999998888


Q ss_pred             CCCC
Q 039177          410 KDVS  413 (453)
Q Consensus       410 ~~~~  413 (453)
                      +|++
T Consensus       149 kG~k  152 (161)
T PF09205_consen  149 KGLK  152 (161)
T ss_dssp             TT-H
T ss_pred             hchH
Confidence            8864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.89  E-value=0.62  Score=36.44  Aligned_cols=85  Identities=12%  Similarity=0.022  Sum_probs=45.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      ..++..+.+.+.......+++.+...+. .+...++.++..|++.. .......+..      ..+......++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3555556666666666666666666553 45556666666666543 2222233321      12334444455666666


Q ss_pred             CCHHHHHHHHHHH
Q 039177          290 NNVEAGIKMIACM  302 (453)
Q Consensus       290 ~~~~~a~~~~~~m  302 (453)
                      +.++++..++..+
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            6666666655554

>PRK15331 chaperone protein SicA; Provisional

Probab=95.89  E-value=0.55  Score=37.30  Aligned_cols=92  Identities=8%  Similarity=-0.045  Sum_probs=59.8

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC
Q 039177          211 NVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQN  290 (453)
Q Consensus       211 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~  290 (453)
                      ...--+-..|++++|..+|+-+...++- +..-|..|..++-..+++++|...|......+. -|...+--...+|...|
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            3344455677788888877777765444 555566666677777777777777776654432 33444444566777777


Q ss_pred             CHHHHHHHHHHHHH
Q 039177          291 NVEAGIKMIACMEE  304 (453)
Q Consensus       291 ~~~~a~~~~~~m~~  304 (453)
                      +.+.|...|+...+
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            77777777777766

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.87  E-value=1.1  Score=39.15  Aligned_cols=145  Identities=13%  Similarity=0.105  Sum_probs=91.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  292 (453)
                      .......|++.+|...|......... +...--.+..+|...|+.+.|..++..+...--.........-|..+.+....
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~~~-~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAAPE-NSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhCcc-cchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            34556778888888888888776444 44555677888888888888888888775432222222323334445555555


Q ss_pred             HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCcCHHHHHHHHHHHHhcCCH
Q 039177          293 EAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWK--GIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      .+..++-...-.   .| |...--.+...+...|+.+.|.+.+-.+.++  |.. |...-..|+..+.-.|..
T Consensus       220 ~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~  288 (304)
T COG3118         220 PEIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPA  288 (304)
T ss_pred             CCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCC
Confidence            555555555544   25 5556667777788888888887776666655  333 445556666666655533

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.86  E-value=0.25  Score=42.57  Aligned_cols=89  Identities=18%  Similarity=0.288  Sum_probs=61.2

Q ss_pred             CCChhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------------HHHHH
Q 039177          273 VPDVYTYNVYINGLCK-----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE----------------LNRLR  331 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~----------------~~~a~  331 (453)
                      +.|..+|-+.+..+..     .++++-....++.|.+.|+..|..+|+.|++.+-+-.-                -+-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            4577788888877754     46788888888999999999999999999998765321                22345


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      +++++|...|+.||-.+-..|+.++.+.|-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            555555555555555555555555555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.77  E-value=2.3  Score=42.04  Aligned_cols=308  Identities=16%  Similarity=0.162  Sum_probs=158.3

Q ss_pred             hcCCCCChhhHHH-----HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCCh--hHHHH-HHhhccc
Q 039177           73 IYNCEPPPEAYHF-----VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRF--QDSVN-LFYKIPK  144 (453)
Q Consensus        73 ~~~~~p~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--~~A~~-~~~~~~~  144 (453)
                      ..|++.+..-|..     +|+-+...+.+..|.++-.++....+  ....++.....-+.+..+.  +++++ +=+++..
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~--~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~  502 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPES--QGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA  502 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccc--cccHHHHHHHHHHHhccCccchHHHHHHHHHhcc
Confidence            4577777666654     67777888888888888877754321  1256777777777776432  22222 2222222


Q ss_pred             --CC-------------CCcHHHHHHHHHHHHHCCCc----cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC----
Q 039177          145 --FR-------------INRVGFAIEILNCMINDGFC----VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG----  201 (453)
Q Consensus       145 --~~-------------~~~~~~a~~~~~~m~~~~~~----p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g----  201 (453)
                        ..             .|+.+.|..+++.=...+..    .+..-+...+.-+.+.|+.  +....++-.+...-    
T Consensus       503 ~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~--~Li~~Vllhlk~~~~~s~  580 (829)
T KOG2280|consen  503 KLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDT--DLIIQVLLHLKNKLNRSS  580 (829)
T ss_pred             cCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCc--hhHHHHHHHHHHHHHHHH
Confidence              11             56666666665432222211    1333456666777777777  55665555444321    


Q ss_pred             -------CCcChhhHHHHHH--------HHHhcCChhHHHHHHHHHH------hCCCCCCHHHHHHHHHHHHhcCCHHH-
Q 039177          202 -------FCFGMVDYTNVIR--------SLVKKEKVFDALGILNQMK------SDGIKPDIVCYTMVLNGVIVQEDYVK-  259 (453)
Q Consensus       202 -------~~~~~~~~~~li~--------~~~~~g~~~~a~~~~~~m~------~~~~~~~~~~~~~ll~~~~~~g~~~~-  259 (453)
                             .+.....|..+++        .+.+.++-..+...|..=.      ..+..|+   .....+.|.+.....- 
T Consensus       581 l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e  657 (829)
T KOG2280|consen  581 LFMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFE  657 (829)
T ss_pred             HHHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhH
Confidence                   1111122222222        0111111111111111000      0111222   2223334443332111 


Q ss_pred             ---------HHHHHHHHH-HCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          260 ---------AEELFDELL-VLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNR  329 (453)
Q Consensus       260 ---------a~~~~~~m~-~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~  329 (453)
                               -+.+.+.+. +.|......+.+--+.-+...|+..+|.++-.+.+-    ||...|-.=+.+++..+++++
T Consensus       658 ~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kwee  733 (829)
T KOG2280|consen  658 AKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEE  733 (829)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHH
Confidence                     111111111 123233344445555566677777777777666653    677777777788888888777


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQ  406 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  406 (453)
                      -+++-+....      +.-|.-++.+|.+.|+.++|.+++.+..  |   ..    ....+|.+.|++.+|.++--+
T Consensus       734 LekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv~--~---l~----ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  734 LEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRVG--G---LQ----EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhccC--C---hH----HHHHHHHHhccHHHHHHHHHH
Confidence            6666544332      3345557777888888888888776542  1   11    346677788888777765444

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.74  E-value=0.74  Score=45.84  Aligned_cols=51  Identities=14%  Similarity=0.295  Sum_probs=23.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELV  334 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  334 (453)
                      |.-|....++..-...++.+.+.|+. +...-+.|+.+|.+.++.++..++.
T Consensus       404 i~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI  454 (933)
T KOG2114|consen  404 IKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFI  454 (933)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHH
Confidence            33344444444444455555555443 3333344555555555554444443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.64  E-value=2.6  Score=41.72  Aligned_cols=89  Identities=10%  Similarity=0.107  Sum_probs=68.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETIC  389 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  389 (453)
                      ..-+.+--+.-+...|+..+|.++-.+.+    .||-..|-.=+.+++..+++++-.++-+.++.      +.-|.-.+.
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe  752 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVE  752 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHH
Confidence            33455666677788889888888766544    45888898889999999999987777655432      344777789


Q ss_pred             HHHhCCCHHHHHHHHHHHh
Q 039177          390 GLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       390 ~~~~~g~~~~A~~~~~~m~  408 (453)
                      +|.+.|+.++|..++.+..
T Consensus       753 ~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HHHhcccHHHHhhhhhccC
Confidence            9999999999999998874

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.61  E-value=0.7  Score=34.99  Aligned_cols=140  Identities=22%  Similarity=0.245  Sum_probs=84.5

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 039177          216 LVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAG  295 (453)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a  295 (453)
                      ..-.|.+++..++..+....   .+..-+|.+|--....-+-+-..++++..   |-..|....          |++...
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis~C----------~NlKrV   75 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDISKC----------GNLKRV   75 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GGG-----------S-THHH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHH---hhhcCchhh----------cchHHH
Confidence            34468888999999888764   26667777776666555555555555554   323444432          333333


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          296 IKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       296 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+-.+-     .+.......+......|.-+.-.+++.++.+. -.+++...-.+..+|.+.|+..++.+++.+.-++
T Consensus        76 i~C~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   76 IECYAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            33222211     24455667778888889999999999888763 3557778888889999999999999999998888


Q ss_pred             CC
Q 039177          376 GL  377 (453)
Q Consensus       376 ~~  377 (453)
                      |+
T Consensus       150 G~  151 (161)
T PF09205_consen  150 GL  151 (161)
T ss_dssp             T-
T ss_pred             ch
Confidence            85

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.60  E-value=1.3  Score=37.96  Aligned_cols=80  Identities=15%  Similarity=0.100  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGI--KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      .+-.-+..-.+.|++++|.+.|+.+....+  +-...+.-.++-++.+.+++++|+..+++....-.......|...|.+
T Consensus        36 ~LY~~g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Ylkg  115 (254)
T COG4105          36 ELYNEGLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKG  115 (254)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHH
Confidence            333444455677888888888888876522  113445556667778888888888888888775433344445555555


Q ss_pred             HH
Q 039177          286 LC  287 (453)
Q Consensus       286 ~~  287 (453)
                      .+
T Consensus       116 Ls  117 (254)
T COG4105         116 LS  117 (254)
T ss_pred             HH
Confidence            44

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.59  E-value=0.32  Score=45.27  Aligned_cols=64  Identities=11%  Similarity=0.043  Sum_probs=42.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          275 DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV----ITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       275 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +...++.+..+|.+.|++++|+..|+..++.  .|+.    .+|..+..+|...|++++|+..++..++.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556666666777777777777777776663  3443    24666677777777777777777766664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.56  E-value=0.14  Score=46.39  Aligned_cols=264  Identities=14%  Similarity=0.018  Sum_probs=153.1

Q ss_pred             HHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCC---ccChHhHHHHHHHHHhcCCCChHHHHHHHHHH--HHc
Q 039177          126 YADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGF---CVDGKTCSLILSSVCEQRDLSSDELLGFVQEM--KKL  200 (453)
Q Consensus       126 ~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~--~~~  200 (453)
                      +++.|+....+.+|+.                  .++.|-   ..=...|..|..+|.-.++.  ++|++++..=  ...
T Consensus        27 Lck~gdcraGv~ff~a------------------A~qvGTeDl~tLSAIYsQLGNAyfyL~DY--~kAl~yH~hDltlar   86 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKA------------------ALQVGTEDLSTLSAIYSQLGNAYFYLKDY--EKALKYHTHDLTLAR   86 (639)
T ss_pred             HHhccchhhhHHHHHH------------------HHHhcchHHHHHHHHHHHhcchhhhHhhH--HHHHhhhhhhHHHHH
Confidence            5677777777777666                  333331   11123566677777777777  7888765321  111


Q ss_pred             --CCC-cChhhHHHHHHHHHhcCChhHHHHHHHHH----HhCCCC-CCHHHHHHHHHHHHhcCC----------------
Q 039177          201 --GFC-FGMVDYTNVIRSLVKKEKVFDALGILNQM----KSDGIK-PDIVCYTMVLNGVIVQED----------------  256 (453)
Q Consensus       201 --g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m----~~~~~~-~~~~~~~~ll~~~~~~g~----------------  256 (453)
                        |-+ -...+...|.+.+--.|.+++|+..-.+-    .+.|-+ .....+..+...|...|+                
T Consensus        87 ~lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~e  166 (639)
T KOG1130|consen   87 LLGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAE  166 (639)
T ss_pred             HhcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHH
Confidence              111 11222334445555566676665432221    121111 123344456666655443                


Q ss_pred             ----HHHHHHHHHHHHH----CCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHH----HCCCCC-CHHHHHHHHHHHH
Q 039177          257 ----YVKAEELFDELLV----LGL-VPDVYTYNVYINGLCKQNNVEAGIKMIACME----ELGSKP-DVITYNTLLQALC  322 (453)
Q Consensus       257 ----~~~a~~~~~~m~~----~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~~~~p-~~~~~~~li~~~~  322 (453)
                          ++.|.++|.+-++    .|- -.--..|..+-+.|.-.|+++.|+...+.=.    +.|-+. ....++.+.++++
T Consensus       167 v~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hi  246 (639)
T KOG1130|consen  167 VTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHI  246 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhh
Confidence                2344444443221    110 0122345666666777889999988776432    233221 2346888889999


Q ss_pred             hcCCHHHHHHHHHHHHH----CC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----C-CCCCChhhHHHHHHHHH
Q 039177          323 KVRELNRLRELVKEMKW----KG-IVLNLQTYSIMIDGLASKGDIIEACGLLEEALN----K-GLCTQSSMFDETICGLC  392 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~----~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~-~~~~~~~~~~~li~~~~  392 (453)
                      -.|+++.|.+.|+.-..    .| -.....++-+|..+|.-..++++|+.++++-..    . +..-....+.+|..+|.
T Consensus       247 flg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~  326 (639)
T KOG1130|consen  247 FLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFN  326 (639)
T ss_pred             hhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            99999999988875433    22 122445677788888888899999988875432    1 23345567888899999


Q ss_pred             hCCCHHHHHHHHHHHhh
Q 039177          393 QRGLVRKALELLKQMAD  409 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~~  409 (453)
                      ..|..++|+.+.+.-++
T Consensus       327 alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  327 ALGEHRKALYFAELHLR  343 (639)
T ss_pred             hhhhHHHHHHHHHHHHH
Confidence            99999999887766543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.53  E-value=2  Score=39.84  Aligned_cols=323  Identities=14%  Similarity=0.129  Sum_probs=175.5

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHcCCC----CCCHHHHHHHHHHHHhcCCh--------hHHHHHHhh-------ccc
Q 039177           84 HFVIKTLAENSQFCDISSVLDHIEKRENF----ETPEFIFIDLIKTYADAHRF--------QDSVNLFYK-------IPK  144 (453)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~~li~~~~~~g~~--------~~A~~~~~~-------~~~  144 (453)
                      +..+..+...|++.++..+++++... -+    .-+...|+.++-++++.=-.        +-+...|+.       |..
T Consensus       132 ~i~a~sLIe~g~f~EgR~iLn~i~~~-llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~  210 (549)
T PF07079_consen  132 EIEAHSLIETGRFSEGRAILNRIIER-LLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHA  210 (549)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHH-HhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHH
Confidence            45677888999999999999988765 23    36788888877776654211        111122221       111


Q ss_pred             CC-------------------------CCcHHHHHHHHHHHHHCCCccChHh-HHHHHHHHHhcCCCChHHHHHHHHHHH
Q 039177          145 FR-------------------------INRVGFAIEILNCMINDGFCVDGKT-CSLILSSVCEQRDLSSDELLGFVQEMK  198 (453)
Q Consensus       145 ~~-------------------------~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~~~a~~~~~~~~  198 (453)
                      .+                         ..+..--.+++....+.-+.|+... ...+......  +.  +++..+-+.+.
T Consensus       211 ~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~--e~~~~~ce~ia  286 (549)
T PF07079_consen  211 FDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DP--EQVGHFCEAIA  286 (549)
T ss_pred             HhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--Ch--HHHHHHHHHHH
Confidence            11                         1112222333333334444555332 2222322222  22  44555444443


Q ss_pred             HcCCCc----ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHH-------HHHHHHH----hcCCHHHHHHH
Q 039177          199 KLGFCF----GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT-------MVLNGVI----VQEDYVKAEEL  263 (453)
Q Consensus       199 ~~g~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-------~ll~~~~----~~g~~~~a~~~  263 (453)
                      ...+.+    =+.++..++...++.++...|.+.+.-+....+  +...-.       .+-+..+    ...+...-+.+
T Consensus       287 ~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp--~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~l  364 (549)
T PF07079_consen  287 SSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDP--RISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNL  364 (549)
T ss_pred             HHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC--cchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHH
Confidence            332111    234577777777778888888777777665422  211111       1111121    11122333445


Q ss_pred             HHHHHHCCCCCChhhHHHHHHH---HHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHh---cCCHHHHHH
Q 039177          264 FDELLVLGLVPDVYTYNVYING---LCKQNN-VEAGIKMIACMEELGSKPDVITYNTLL----QALCK---VRELNRLRE  332 (453)
Q Consensus       264 ~~~m~~~g~~~~~~~~~~li~~---~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li----~~~~~---~~~~~~a~~  332 (453)
                      |+.....++.. .....-++.+   +-+.|. -++|.++++.+.+-. .-|..+-|.+.    .+|.+   ...+..-..
T Consensus       365 we~~qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlk  442 (549)
T PF07079_consen  365 WEEIQSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLK  442 (549)
T ss_pred             HHHHHhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence            55544433211 1112222222   344554 788999998888732 12333333332    33432   234455555


Q ss_pred             HHHHHHHCCCCc----CHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 039177          333 LVKEMKWKGIVL----NLQTYSIMIDG--LASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQ  406 (453)
Q Consensus       333 ~~~~~~~~~~~p----~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  406 (453)
                      +-+-+.+.|+.|    +...-|.|-++  +...|++.++.-.-....+  +.|++.+|..+--++....++++|..++..
T Consensus       443 Le~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~  520 (549)
T PF07079_consen  443 LEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQK  520 (549)
T ss_pred             HHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence            555666677765    33455555554  4567999988777666654  578999999888888888999999999987


Q ss_pred             HhhCCCCCCHHHHHHH
Q 039177          407 MADKDVSPGARVWEAL  422 (453)
Q Consensus       407 m~~~~~~p~~~~~~~l  422 (453)
                      +     +||..++.+=
T Consensus       521 L-----P~n~~~~dsk  531 (549)
T PF07079_consen  521 L-----PPNERMRDSK  531 (549)
T ss_pred             C-----CCchhhHHHH
Confidence            5     6777777754

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=95.51  E-value=1  Score=36.37  Aligned_cols=101  Identities=9%  Similarity=0.065  Sum_probs=49.1

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCChhhHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-VPDVYTYNVY  282 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~l  282 (453)
                      |++..--.|..+..+.|+..+|...|++...--..-|....-.+.++....+++..|...++++.+... .-+..+--.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            444444455555555555555555555555433333444444555555555555555555555544220 0011222234


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      ...+...|...+|+.-|+....
T Consensus       167 aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHH
Confidence            4445555555555555555554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.51  E-value=1.9  Score=39.25  Aligned_cols=264  Identities=12%  Similarity=-0.002  Sum_probs=144.2

Q ss_pred             CCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHH--hcCCCChHHHHHHHHHHHHcCCCcChh--hHHHHHHHHHhcC
Q 039177          145 FRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVC--EQRDLSSDELLGFVQEMKKLGFCFGMV--DYTNVIRSLVKKE  220 (453)
Q Consensus       145 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~--~~~~li~~~~~~g  220 (453)
                      .+.|+-..|.++-.+..+ -+.-|..-...+|.+-.  -.|+.  +.+.+-|+.|...   |...  -...|.-..-+.|
T Consensus        95 agAGda~lARkmt~~~~~-llssDqepLIhlLeAQaal~eG~~--~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~G  168 (531)
T COG3898          95 AGAGDASLARKMTARASK-LLSSDQEPLIHLLEAQAALLEGDY--EDARKKFEAMLDD---PETRLLGLRGLYLEAQRLG  168 (531)
T ss_pred             hccCchHHHHHHHHHHHh-hhhccchHHHHHHHHHHHHhcCch--HHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcc
Confidence            335666666665544432 13445555555555433  33444  7777777777653   2211  1233333334567


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhh--HHHHHHHHH---hcCCHHH
Q 039177          221 KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG-LVPDVYT--YNVYINGLC---KQNNVEA  294 (453)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~--~~~li~~~~---~~~~~~~  294 (453)
                      ..+.|..+-++.-..-.. -...+...+...|..|+++.|+++++.-.... +.++..-  -..|+.+-.   -..+...
T Consensus       169 areaAr~yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~  247 (531)
T COG3898         169 AREAARHYAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPAS  247 (531)
T ss_pred             cHHHHHHHHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHH
Confidence            777777776666554322 34567777777777888888887777655432 2232221  112222211   1223444


Q ss_pred             HHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          295 GIKMIACMEELGSKPDVIT-YNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       295 a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      |.+.-.+..+  +.||..- -..-..++.+.|++.++-.+++.+-+..+.|+.  +.  +..+++.|+.  +..-++...
T Consensus       248 Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a~--lY~~ar~gdt--a~dRlkRa~  319 (531)
T COG3898         248 ARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--AL--LYVRARSGDT--ALDRLKRAK  319 (531)
T ss_pred             HHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--HH--HHHHhcCCCc--HHHHHHHHH
Confidence            4444444443  4566542 233456788888999999998888887555543  22  2233455543  333333332


Q ss_pred             HC-CCCCCh-hhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhc
Q 039177          374 NK-GLCTQS-SMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS  425 (453)
Q Consensus       374 ~~-~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a  425 (453)
                      .. .++||. ...-.+..+-...|++..|..--+...  ...|....|..|-..
T Consensus       320 ~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~--r~~pres~~lLlAdI  371 (531)
T COG3898         320 KLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA--REAPRESAYLLLADI  371 (531)
T ss_pred             HHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh--hhCchhhHHHHHHHH
Confidence            22 334443 334455667777888888877666665  457777777665443

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=95.47  E-value=0.52  Score=44.73  Aligned_cols=160  Identities=12%  Similarity=0.049  Sum_probs=102.2

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV  167 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p  167 (453)
                      +...-.++++.+.++.+.-.--..+  +....+.++..+-+.|..+.|+.+-.+                          
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D--------------------------  320 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTD--------------------------  320 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS---------------------------
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCC--------------------------
Confidence            4445568888877766521111112  245689999999999999999887543                          


Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                       .   ..-+....+.|++  +.|.++..+      ..+...|..|.+...+.|+++-|.+.|.+..+         |..|
T Consensus       321 -~---~~rFeLAl~lg~L--~~A~~~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L  379 (443)
T PF04053_consen  321 -P---DHRFELALQLGNL--DIALEIAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGL  379 (443)
T ss_dssp             -H---HHHHHHHHHCT-H--HHHHHHCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHH
T ss_pred             -h---HHHhHHHHhcCCH--HHHHHHHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------cccc
Confidence             1   1223345567777  777765322      23677899999999999999999999987763         5667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      +-.|.-.|+.+...++.+.....|      -++....++.-.|+.++..+++..-
T Consensus       380 ~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  380 LLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            777888899888888877776654      2556666677778888887776653

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.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=95.47  E-value=0.64  Score=42.35  Aligned_cols=270  Identities=13%  Similarity=0.061  Sum_probs=143.7

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHC
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETP----EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIND  163 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~  163 (453)
                      .-+++.|+.......|+...+. | ..|    ..+|.-|-.+|.-.+++++|+++...=.       ..|..+=+++   
T Consensus        25 ERLck~gdcraGv~ff~aA~qv-G-TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDl-------tlar~lgdkl---   92 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQV-G-TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDL-------TLARLLGDKL---   92 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHh-c-chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhH-------HHHHHhcchh---
Confidence            4588999999999999999987 3 223    3466777778888888888887653200       0000000000   


Q ss_pred             CCccChHhHHHHHHHHHhcCCCChHHHHHHH-H---HHHHcCCC-cChhhHHHHHHHHHhcCC-----------------
Q 039177          164 GFCVDGKTCSLILSSVCEQRDLSSDELLGFV-Q---EMKKLGFC-FGMVDYTNVIRSLVKKEK-----------------  221 (453)
Q Consensus       164 ~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~-~---~~~~~g~~-~~~~~~~~li~~~~~~g~-----------------  221 (453)
                      |   .......|...+-..|.+  ++|.-.. .   -..+.|-. .....+..+...|...|+                 
T Consensus        93 G---EAKssgNLGNtlKv~G~f--deA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev  167 (639)
T KOG1130|consen   93 G---EAKSSGNLGNTLKVKGAF--DEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEV  167 (639)
T ss_pred             c---cccccccccchhhhhccc--chHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHH
Confidence            0   001111112222222222  2221110 0   00111100 112334444555544332                 


Q ss_pred             ---hhHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCC-CChhhHHHHHHHHHh
Q 039177          222 ---VFDALGILNQMKS----DGI-KPDIVCYTMVLNGVIVQEDYVKAEELFDELLV----LGLV-PDVYTYNVYINGLCK  288 (453)
Q Consensus       222 ---~~~a~~~~~~m~~----~~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~-~~~~~~~~li~~~~~  288 (453)
                         ++.|.++|.+=.+    .|- -.--..|..|-+.|.-.|+++.|+...+.-+.    .|-. .....+..+.+++.-
T Consensus       168 ~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hif  247 (639)
T KOG1130|consen  168 TSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIF  247 (639)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhh
Confidence               2334444432221    110 00123455666666677888888877765432    2211 234566777788888


Q ss_pred             cCCHHHHHHHHHHHHH----CCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCcCHHHHHHHHHHHHh
Q 039177          289 QNNVEAGIKMIACMEE----LGSK-PDVITYNTLLQALCKVRELNRLRELVKEMKWK-----GIVLNLQTYSIMIDGLAS  358 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~----~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~~~~~~~li~~~~~  358 (453)
                      .|+++.|.+.|+.-..    .|-+ ....++-+|.+.|.-..++++|+.++..-+..     ...-....|-+|..+|..
T Consensus       248 lg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~a  327 (639)
T KOG1130|consen  248 LGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNA  327 (639)
T ss_pred             hcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            8888888888776432    2211 12345666777777777888888777643321     112255677788888888


Q ss_pred             cCCHHHHHHHHHHHHH
Q 039177          359 KGDIIEACGLLEEALN  374 (453)
Q Consensus       359 ~g~~~~A~~~~~~m~~  374 (453)
                      .|..++|+.+.+.-.+
T Consensus       328 lg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  328 LGEHRKALYFAELHLR  343 (639)
T ss_pred             hhhHHHHHHHHHHHHH
Confidence            8888888877765543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.26  E-value=2.1  Score=38.32  Aligned_cols=128  Identities=16%  Similarity=0.131  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHCCCccChHhHHHHHHHHHh--cCCCC--hHHHHHHHHHHHHcCC---CcChhhHHHHHHHHHhcCCh---
Q 039177          153 AIEILNCMINDGFCVDGKTCSLILSSVCE--QRDLS--SDELLGFVQEMKKLGF---CFGMVDYTNVIRSLVKKEKV---  222 (453)
Q Consensus       153 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~~~~--~~~a~~~~~~~~~~g~---~~~~~~~~~li~~~~~~g~~---  222 (453)
                      .+.+++.|.+.|+.-+.++|.+.+.....  ..+.+  ...+..+|+.|++...   .++...+..|+..  ..+++   
T Consensus        81 ~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l  158 (297)
T PF13170_consen   81 VLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEEL  158 (297)
T ss_pred             HHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHH
Confidence            56678889999999888887765444433  11111  1567777788877631   2333444444433  22222   


Q ss_pred             -hHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          223 -FDALGILNQMKSDGIKPDIV--CYTMVLNGVIVQED--YVKAEELFDELLVLGLVPDVYTYNVY  282 (453)
Q Consensus       223 -~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~g~--~~~a~~~~~~m~~~g~~~~~~~~~~l  282 (453)
                       +.++.+|+.+.+.|+..+-.  ..+.++..+.....  ...+.++++.+.+.|++.....|..+
T Consensus       159 ~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  159 AERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence             34556666666655544322  22222222221111  23556666666666666655555544

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=95.10  E-value=3  Score=39.27  Aligned_cols=69  Identities=7%  Similarity=0.126  Sum_probs=49.6

Q ss_pred             CCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC
Q 039177           77 EPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR  146 (453)
Q Consensus        77 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  146 (453)
                      .-|+..|...+.-|-+.+.+.....+|..|...++-.|+..++.+.-.. -....++.|+.+|-+-.+.+
T Consensus       102 ~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~wef-e~n~ni~saRalflrgLR~n  170 (568)
T KOG2396|consen  102 NGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWEF-EINLNIESARALFLRGLRFN  170 (568)
T ss_pred             CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhHH-hhccchHHHHHHHHHHhhcC
Confidence            3489999999998888888999999999999887555555554433222 22233888888887755544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.05  E-value=2.1  Score=41.36  Aligned_cols=163  Identities=13%  Similarity=0.023  Sum_probs=103.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh------hhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV------YTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVIT  313 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~------~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~  313 (453)
                      +..+++...-.||-+.+++.+.+..+.+-....      -.|..++..++.    ....+.|.+++..+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            345666666778888888888776553211111      223444444433    34678888999888874  477666


Q ss_pred             HHHHH-HHHHhcCCHHHHHHHHHHHHHCC---CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          314 YNTLL-QALCKVRELNRLRELVKEMKWKG---IVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETIC  389 (453)
Q Consensus       314 ~~~li-~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  389 (453)
                      |...- +.+...|++++|.+.|+......   .+.....+--+.-.+.-.+++++|...|..+.+.. ..+..+|.-+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            65443 56677889999999998765421   11233344455666777889999999999998754 233444444433


Q ss_pred             -HHHhCCCH-------HHHHHHHHHHhh
Q 039177          390 -GLCQRGLV-------RKALELLKQMAD  409 (453)
Q Consensus       390 -~~~~~g~~-------~~A~~~~~~m~~  409 (453)
                       ++...|+.       ++|.++|.+...
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence             34456777       888888887653

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.00  E-value=1.1  Score=40.93  Aligned_cols=95  Identities=15%  Similarity=-0.016  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh-HHHHHHH
Q 039177          312 ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSM-FDETICG  390 (453)
Q Consensus       312 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~-~~~li~~  390 (453)
                      .++..|.-+|.+.+++..|+..-...+..+.. |+...-.=..+|...|+++.|+..|+++++.  .|+... -+.|+..
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence            45677788888999999999988888887655 7777667778888899999999999999875  455444 3344433


Q ss_pred             HHhCCC-HHHHHHHHHHHhh
Q 039177          391 LCQRGL-VRKALELLKQMAD  409 (453)
Q Consensus       391 ~~~~g~-~~~A~~~~~~m~~  409 (453)
                      -.+... .++..++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            333333 3344667777764

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.98  E-value=3.3  Score=40.02  Aligned_cols=138  Identities=17%  Similarity=0.117  Sum_probs=64.6

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhc--CCCChHHHHHHHH
Q 039177          118 IFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQ--RDLSSDELLGFVQ  195 (453)
Q Consensus       118 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--~~~~~~~a~~~~~  195 (453)
                      ....++...+-.|+-+.+++.+....+.+  ....++..+          -.-+|..++..++..  .+.+.+.+.++++
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~--~i~~~la~L----------~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~  257 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSE--NIRSPLAAL----------VLLWYHLVVPSFLGIDGEDVPLEEAEELLE  257 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccC--CcchHHHHH----------HHHHHHHHHHHHcCCcccCCCHHHHHHHHH
Confidence            34456666666677666666655422210  000000000          011344444444433  3334466777777


Q ss_pred             HHHHcCCCcChhhHH-HHHHHHHhcCChhHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          196 EMKKLGFCFGMVDYT-NVIRSLVKKEKVFDALGILNQMKSDG---IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       196 ~~~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~---~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      .+.+.-  |+...|. .-.+.+...|++++|++.|++.....   .......+--+.-++.-.+++++|.+.|..+.+
T Consensus       258 ~~~~~y--P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~  333 (468)
T PF10300_consen  258 EMLKRY--PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLK  333 (468)
T ss_pred             HHHHhC--CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHh
Confidence            666643  4444433 23445556677777777777554210   001112222233344455566666666665555

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.81  E-value=0.93  Score=40.21  Aligned_cols=155  Identities=10%  Similarity=0.035  Sum_probs=82.2

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh----hHHHHHHHHHhcCCHH
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVY----TYNVYINGLCKQNNVE  293 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~----~~~~li~~~~~~~~~~  293 (453)
                      -.|++.+|-..++++.+.- +.|..++.-.=.+|..+|+.+.-...+++....- .+|..    .-..+..+...+|.++
T Consensus       115 ~~g~~h~a~~~wdklL~d~-PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~w-n~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKW-NADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhcccc-CCCCcHHHHHHHHHHhhHHHhccch
Confidence            3566666666666666653 3366666666677777777777776666665431 12222    2222333344667777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---cCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          294 AGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV---LNLQTYSIMIDGLASKGDIIEACGLLE  370 (453)
Q Consensus       294 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~~~A~~~~~  370 (453)
                      +|++.-++..+.+ ..|...-.++...+--.|++.++.++...-...--.   .-...|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            7777666666543 234555556666666666777766665433221000   001111122223344466777777776


Q ss_pred             HHHHC
Q 039177          371 EALNK  375 (453)
Q Consensus       371 ~m~~~  375 (453)
                      .-+-+
T Consensus       272 ~ei~k  276 (491)
T KOG2610|consen  272 REIWK  276 (491)
T ss_pred             HHHHH
Confidence            54433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.77  E-value=0.37  Score=40.62  Aligned_cols=45  Identities=9%  Similarity=0.005  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCC-CCcHHHHHHHHHHH
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-INRVGFAIEILNCM  160 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~a~~~~~~m  160 (453)
                      +..++.....|..+|.++-|-..+++.-+.- ..+++.|+++|++.
T Consensus        91 vdl~eKAs~lY~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqra  136 (308)
T KOG1585|consen   91 VDLYEKASELYVECGSPDTAAMALEKAAKALENVKPDDALQLYQRA  136 (308)
T ss_pred             HHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            3445555566666666655555554422211 23444444444443

>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=94.76  E-value=0.75  Score=43.72  Aligned_cols=128  Identities=20%  Similarity=0.173  Sum_probs=60.5

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      .+.++..+-+.|..+.|+++..+-.            .-.....+.|+++.|.++.++.      .+...|..|.....+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHH
Confidence            4555555555565555555533211            1223344555555555443321      345556666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          289 QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGL  368 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  368 (453)
                      .|+++.|++.|.+..+         |..|+-.|.-.|+.+...++.+.....|-      ++....++.-.|++++..++
T Consensus       360 ~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  360 QGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            6666666655555443         44455555555555555555555444431      23333334444555554444


Q ss_pred             H
Q 039177          369 L  369 (453)
Q Consensus       369 ~  369 (453)
                      +
T Consensus       425 L  425 (443)
T PF04053_consen  425 L  425 (443)
T ss_dssp             H
T ss_pred             H
Confidence            4

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.63  E-value=0.45  Score=41.66  Aligned_cols=62  Identities=11%  Similarity=0.083  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          312 ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       312 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .++..++..+...|+++.+...++++....+. +...|..++.+|.+.|+...|+..++.+.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            34555666666666666666666666665544 566666666666666666666666665543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.50  E-value=1.7  Score=33.66  Aligned_cols=74  Identities=9%  Similarity=-0.004  Sum_probs=44.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          320 ALCKVRELNRLRELVKEMKWKGI--VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ  393 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  393 (453)
                      ...+.|++++|.+.|+.+..+-+  .-....--.|+.+|.+.|++++|...+++.++........-|...+.+++.
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            33566777777777777776621  113345556677777777777777777777766433333345545555443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.48  E-value=0.7  Score=40.56  Aligned_cols=99  Identities=16%  Similarity=0.184  Sum_probs=48.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLG---LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNT  316 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  316 (453)
                      .+.+...++..-....+++.++..+-.+...-   ..++. +-.+.++.+. .-+.++++.++..=++.|+-||.++++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHH-ccChHHHHHHHhCcchhccccchhhHHH
Confidence            33444444444444455555555555544321   11111 1112222222 2234566666666666666666666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +|+.+.+.+++.+|.++.-.|...
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHH
Confidence            666666666666666665555444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.34  E-value=4.2  Score=37.41  Aligned_cols=151  Identities=19%  Similarity=0.101  Sum_probs=76.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH---H-------
Q 039177          250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING--LCKQNNVEAGIKMIACMEELGSKPDVITYNT---L-------  317 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~--~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---l-------  317 (453)
                      ++...|+.++|.++--..++..   ....+...+++  +.-.++.+.+..-|.+.+..+  |+...--.   .       
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHH
Confidence            3445566666666655555432   12222223322  334555666666666665533  44322111   1       


Q ss_pred             ---HHHHHhcCCHHHHHHHHHHHHHC---CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh---HHHHH
Q 039177          318 ---LQALCKVRELNRLRELVKEMKWK---GIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSM---FDETI  388 (453)
Q Consensus       318 ---i~~~~~~~~~~~a~~~~~~~~~~---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~---~~~li  388 (453)
                         .+-..+.|++..|.+.+.+.+..   ++.|+...|........+.|+..+|+.-.++....+    ...   |..-.
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD----~syikall~ra  328 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID----SSYIKALLRRA  328 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC----HHHHHHHHHHH
Confidence               12234566667777777666654   345556666666666666677777666666654432    221   11112


Q ss_pred             HHHHhCCCHHHHHHHHHHHhh
Q 039177          389 CGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .++.-.+++++|.+-+++..+
T Consensus       329 ~c~l~le~~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  329 NCHLALEKWEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHh
Confidence            233344556666666666543

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=94.29  E-value=3.7  Score=36.54  Aligned_cols=62  Identities=13%  Similarity=0.075  Sum_probs=31.8

Q ss_pred             hHHHHHHHHHhcCChh---HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          208 DYTNVIRSLVKKEKVF---DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL  270 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~---~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  270 (453)
                      ++..++.+|...+..+   +|..+++.+...... ....+-.-+..+.+.++.+.+.+++.+|...
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            3555666666655544   344444444433222 2333334445555566666666666666653

It is also involved in sporulation [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.18  E-value=0.65  Score=40.69  Aligned_cols=78  Identities=15%  Similarity=0.153  Sum_probs=48.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCChhhHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV-----LGLVPDVYTYNV  281 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~~~~  281 (453)
                      .++..++..+..+|+++.+.+.++++....+- +...|..+|.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            34556666666667777777777766665443 666666777777777777777766666543     455565555544


Q ss_pred             HHHH
Q 039177          282 YING  285 (453)
Q Consensus       282 li~~  285 (453)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.18  E-value=4.8  Score=37.48  Aligned_cols=147  Identities=17%  Similarity=0.174  Sum_probs=107.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLG-LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVIT-YNTL  317 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~l  317 (453)
                      -..+|...|+...+..-++.|..+|-+..+.| +.+++..++++|..++ .|+...|.++|+.-...  -||... -+-.
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~ky  472 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKY  472 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHH
Confidence            44567788888888888999999999998888 5678888898887655 56678888998865543  245543 3556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLN--LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      +..+...++-..|..+|+..+.+ +.-+  ...|..+|.--..-|++..+..+=+.|.+.  .|...+......-|.
T Consensus       473 l~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         473 LLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            77778889999999999865544 1112  457888998888899999888888888663  555555444444444

>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=94.16  E-value=2.4  Score=34.00  Aligned_cols=29  Identities=14%  Similarity=0.140  Sum_probs=14.5

Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 039177          265 DELLVLGLVPDVYTYNVYINGLCKQNNVE  293 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~  293 (453)
                      +.+.+.++.|+...+..+++.+.+.|++.
T Consensus        18 rSl~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   18 RSLNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            33344455555555555555555555433

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.12  E-value=7.1  Score=39.37  Aligned_cols=179  Identities=15%  Similarity=0.164  Sum_probs=114.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHH----HHHHHhcCCCChHHHHHH
Q 039177          118 IFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLI----LSSVCEQRDLSSDELLGF  193 (453)
Q Consensus       118 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l----l~~~~~~~~~~~~~a~~~  193 (453)
                      ....-++...+...++.|+.+-..                     .+.  |..+...+    ..-+.+.|++  ++|...
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~---------------------~~~--d~d~~~~i~~kYgd~Ly~Kgdf--~~A~~q  390 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKS---------------------QHL--DEDTLAEIHRKYGDYLYGKGDF--DEATDQ  390 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHh---------------------cCC--CHHHHHHHHHHHHHHHHhcCCH--HHHHHH
Confidence            344455666666666666665332                     222  33333333    3345577887  888876


Q ss_pred             HHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          194 VQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLV  273 (453)
Q Consensus       194 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~  273 (453)
                      +-+.... +.|     ..+|.-|.+...+.+-..+++.+.+.|+. +...-+.|+.+|.+.++.++-.++.+... .|..
T Consensus       391 YI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~  462 (933)
T KOG2114|consen  391 YIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW  462 (933)
T ss_pred             HHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce
Confidence            6443332 122     25677778888888888899999998887 66777889999999999988777665543 2211


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          274 PDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       274 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                        ..-....+..+.+.+-.++|..+-.....     +......++   -..+++++|++.+..+.-
T Consensus       463 --~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~ill---e~~~ny~eAl~yi~slp~  518 (933)
T KOG2114|consen  463 --FFDVETALEILRKSNYLDEAELLATKFKK-----HEWVLDILL---EDLHNYEEALRYISSLPI  518 (933)
T ss_pred             --eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcCCH
Confidence              12245677777888888888766554433     344444444   345789999988876543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.93  E-value=0.24  Score=29.63  Aligned_cols=29  Identities=10%  Similarity=0.075  Sum_probs=17.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDG  236 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  236 (453)
                      +|..+...|.+.|++++|+++|++..+..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            34555566666666666666666666553

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.89  E-value=0.29  Score=29.20  Aligned_cols=24  Identities=13%  Similarity=0.141  Sum_probs=9.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +..+|.+.|++++|+++|+.+++.
T Consensus         7 la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    7 LARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            333334444444444444443333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.71  E-value=6.5  Score=37.29  Aligned_cols=58  Identities=16%  Similarity=0.080  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          316 TLLQALCKVRELNRLRELVKEMKWKGIV-LNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       316 ~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      .+..++-+.|+.++|.+.+++|.+.... -+......|+.++...+.+.++..++.+-.
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            3444455666666666666666654222 133455666666666666666666666653

The molecular function of this protein is uncertain.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=93.70  E-value=2.3  Score=32.20  Aligned_cols=92  Identities=15%  Similarity=0.026  Sum_probs=59.2

Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH---HHHHHHhcC
Q 039177          214 RSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV---YINGLCKQN  290 (453)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~---li~~~~~~~  290 (453)
                      -+.+..|+++.|++.|.+....-++ ....||.-..++.-.|+.++|++=+++.++..-.-+.....+   -...|...|
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~-raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPE-RASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhccc-chHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            4556777888888888777665333 667777777778777888888777777665321222222222   233466677


Q ss_pred             CHHHHHHHHHHHHHCC
Q 039177          291 NVEAGIKMIACMEELG  306 (453)
Q Consensus       291 ~~~~a~~~~~~m~~~~  306 (453)
                      +.+.|..=|+..-+.|
T Consensus       130 ~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLG  145 (175)
T ss_pred             chHHHHHhHHHHHHhC
Confidence            7777777777766655

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.70  E-value=1.5  Score=37.83  Aligned_cols=97  Identities=13%  Similarity=0.111  Sum_probs=55.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-Cc-CHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSK--PDVITYNTLLQALCKVRELNRLRELVKEMKWKGI-VL-NLQTYSIMI  353 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p-~~~~~~~li  353 (453)
                      .|+..+. +.+.|++..|...|...++....  -....+-.|..++...|++++|..+|..+.+.-. .| -+...--|.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4555554 34555577777777766664311  0122345566677777777777777776666421 11 224555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 039177          354 DGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       354 ~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+..+.|+.++|...|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            6666667777777777766654

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.64  E-value=2.7  Score=32.65  Aligned_cols=77  Identities=17%  Similarity=0.163  Sum_probs=46.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          212 VIRSLVKKEKVFDALGILNQMKSDGI--KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       212 li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      -.....+.|++++|.+.|+.+...-+  +-...+--.++.+|.+.+++++|...++++++........-|...+.+++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            34445566777888877777776521  112344555777777778888888877777775533334445555555443

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=93.63  E-value=5  Score=35.73  Aligned_cols=172  Identities=12%  Similarity=0.045  Sum_probs=104.3

Q ss_pred             HhcCCcchHHHHHHHHHHcC-CCCCCH------HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHH-H
Q 039177           91 AENSQFCDISSVLDHIEKRE-NFETPE------FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMI-N  162 (453)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~-~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~-~  162 (453)
                      .+.|+++.|...+.+..... ...|+.      ..|+.-...+.+..++++|...+++           |.++++... .
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~-----------a~~~l~~~~~~   72 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQR-----------AYDILEKPGKM   72 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHH-----------HHHHHHhhhhc
Confidence            56789999999998887653 223332      2344444444444488899888876           666665421 1


Q ss_pred             CCCccCh-----HhHHHHHHHHHhcCCCC-hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039177          163 DGFCVDG-----KTCSLILSSVCEQRDLS-SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDG  236 (453)
Q Consensus       163 ~~~~p~~-----~~~~~ll~~~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  236 (453)
                      ....|+.     .++..+..++...+..+ .+++..+++.+.... +-...++-.-+..+.+.++.+.+.+++.+|...-
T Consensus        73 ~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~  151 (278)
T PF08631_consen   73 DKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV  151 (278)
T ss_pred             cccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc
Confidence            2223333     36677777887777652 145666766665543 2234555566777777899999999999998762


Q ss_pred             CCCCHHHHHHHHHHH---HhcCCHHHHHHHHHHHHHCCCCCCh
Q 039177          237 IKPDIVCYTMVLNGV---IVQEDYVKAEELFDELLVLGLVPDV  276 (453)
Q Consensus       237 ~~~~~~~~~~ll~~~---~~~g~~~~a~~~~~~m~~~g~~~~~  276 (453)
                      .- ....+..++..+   .. .....|...+..++...+.|..
T Consensus       152 ~~-~e~~~~~~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  152 DH-SESNFDSILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             cc-ccchHHHHHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCCh
Confidence            21 334455555554   33 3345566666666554444444

It is also involved in sporulation [].

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.05  E-value=2.2  Score=36.86  Aligned_cols=96  Identities=13%  Similarity=0.048  Sum_probs=50.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-C-ChhhHHHHHH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIK--PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLV-P-DVYTYNVYIN  284 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~-~~~~~~~li~  284 (453)
                      |+.-++. .+.|++..|...|....+..+.  -....+-.|..++...|++++|..+|..+.+.-.+ | -+...--+..
T Consensus       145 Y~~A~~~-~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~  223 (262)
T COG1729         145 YNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGV  223 (262)
T ss_pred             HHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHH
Confidence            4444433 3445566666666666654221  12223445666666666666666666666553211 1 1233444444


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 039177          285 GLCKQNNVEAGIKMIACMEEL  305 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~  305 (453)
                      ...+.|+.++|..+|+++.+.
T Consensus       224 ~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         224 SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHhcCHHHHHHHHHHHHHH
Confidence            555666666666666666653

>PRK11906 transcriptional regulator; Provisional

Probab=92.96  E-value=6.5  Score=37.04  Aligned_cols=79  Identities=13%  Similarity=-0.001  Sum_probs=35.0

Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD-VYTYNVYINGLCKQNNVEAGIKMIAC  301 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~~~~~~a~~~~~~  301 (453)
                      .+|.++.++..+.+.. |......+..+....++++.|..+|++....+  || ..+|........-+|+.++|.+.+++
T Consensus       321 ~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~  397 (458)
T PRK11906        321 QKALELLDYVSDITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDK  397 (458)
T ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444444332 44444444444444455555555555554432  22 22233333333445555555555555


Q ss_pred             HHH
Q 039177          302 MEE  304 (453)
Q Consensus       302 m~~  304 (453)
                      ..+
T Consensus       398 alr  400 (458)
T PRK11906        398 SLQ  400 (458)
T ss_pred             Hhc
Confidence            433

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=92.40  E-value=9  Score=35.38  Aligned_cols=268  Identities=9%  Similarity=-0.011  Sum_probs=153.9

Q ss_pred             HHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCc
Q 039177           87 IKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFC  166 (453)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~  166 (453)
                      -.++.+..++..|+..+....+.  .+.++.-|..-...|...|++++|.--...-.+...+...           ....
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~--~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k-----------~~~r  122 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDM--CPDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSK-----------GQLR  122 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHh--CccchhhhchhHHHHHHHHhHhhcccchhhheecCCCccc-----------cccc
Confidence            34566777788888888888776  2556666777777777777777766444332221100000           0000


Q ss_pred             cC--hHhHHHHHHHHHhcCCCCh---HHHHHHHHHHHHcC-CCcChhhHHHH-HHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039177          167 VD--GKTCSLILSSVCEQRDLSS---DELLGFVQEMKKLG-FCFGMVDYTNV-IRSLVKKEKVFDALGILNQMKSDGIKP  239 (453)
Q Consensus       167 p~--~~~~~~ll~~~~~~~~~~~---~~a~~~~~~~~~~g-~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (453)
                      ++  ......++.+.....+.+.   ..++..++.+.... -+|....|..+ ..++.-.|++++|...-....+.... 
T Consensus       123 ~~~c~~a~~~~i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~-  201 (486)
T KOG0550|consen  123 EGQCHLALSDLIEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDAT-  201 (486)
T ss_pred             hhhhhhhhHHHHHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccc-
Confidence            00  0112222333222222211   11111112211111 12333444443 23455678888888887777665322 


Q ss_pred             CHHHHHHHHH--HHHhcCCHHHHHHHHHHHHHCCCCCChhhHH-------------HHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          240 DIVCYTMVLN--GVIVQEDYVKAEELFDELLVLGLVPDVYTYN-------------VYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       240 ~~~~~~~ll~--~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~-------------~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      +  .+...++  ++.-.++.+.+...|.+.+..+  |+...-.             .-.+-..+.|.+..|.+.|.+.+.
T Consensus       202 n--~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~  277 (486)
T KOG0550|consen  202 N--AEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALN  277 (486)
T ss_pred             h--hHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhc
Confidence            2  2333333  3445678888888888887754  4433221             122334678999999999999886


Q ss_pred             C---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH---HHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          305 L---GSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIM---IDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       305 ~---~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      .   +.+|+...|.....+..+.|+.++|+.--++..+.    |..-.-++   ..++...++|++|.+-++...+..
T Consensus       278 idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  278 IDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             CCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            3   24455667888888888999999999988888776    44332222   345566788999999998887653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.39  E-value=7.3  Score=34.29  Aligned_cols=149  Identities=11%  Similarity=0.008  Sum_probs=94.3

Q ss_pred             HHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCc
Q 039177           87 IKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFC  166 (453)
Q Consensus        87 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~  166 (453)
                      ...+...+++.+|..+|+......  +-+......+..+|...|+.+.|..++..++.....                  
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~~--~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~------------------  200 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQAA--PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQD------------------  200 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHhC--cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchh------------------
Confidence            345677899999999999998874  445667888999999999999999999987753100                  


Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHH
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD--GIKPDIVCY  244 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~  244 (453)
                      ........-|..+.+....  .+...+-...-..  +-|...-..+...+...|+.+.|.+.+-.+.++  |.. |...-
T Consensus       201 ~~~~~l~a~i~ll~qaa~~--~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~R  275 (304)
T COG3118         201 KAAHGLQAQIELLEQAAAT--PEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEAR  275 (304)
T ss_pred             hHHHHHHHHHHHHHHHhcC--CCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHH
Confidence            0011111122223333333  2222232333221  336666777888888889999988877766654  333 55556


Q ss_pred             HHHHHHHHhcCCHHHH
Q 039177          245 TMVLNGVIVQEDYVKA  260 (453)
Q Consensus       245 ~~ll~~~~~~g~~~~a  260 (453)
                      ..++..+.-.|.-+.+
T Consensus       276 k~lle~f~~~g~~Dp~  291 (304)
T COG3118         276 KTLLELFEAFGPADPL  291 (304)
T ss_pred             HHHHHHHHhcCCCCHH
Confidence            6677777666644433

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.28  E-value=14  Score=37.17  Aligned_cols=93  Identities=9%  Similarity=0.003  Sum_probs=65.9

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCC---CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHH
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFET---PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIN  162 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~  162 (453)
                      -|+-+.+.+.+++|+++.+...   |..+   -..++...|..+.-.|++++|-...-.|...+...|++....|.+...
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~---~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~  438 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASI---GNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQ  438 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhcc---CCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccc
Confidence            4566777888888888877665   3344   456888999999999999999999988887766666666666655543


Q ss_pred             C----CCc------cChHhHHHHHHHHHh
Q 039177          163 D----GFC------VDGKTCSLILSSVCE  181 (453)
Q Consensus       163 ~----~~~------p~~~~~~~ll~~~~~  181 (453)
                      .    .+.      .+...|..+|..+..
T Consensus       439 l~~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  439 LTDIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cchhhccCCCCCcccCchHHHHHHHHHHH
Confidence            1    111      244567777777765

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.15  E-value=6.4  Score=33.09  Aligned_cols=221  Identities=16%  Similarity=0.022  Sum_probs=147.0

Q ss_pred             HHHHHHHHHHHHcCCC-cChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFC-FGMVDYTNVIRSLVKKEKVFDALGILNQMKSD-GIKPDIVCYTMVLNGVIVQEDYVKAEELFD  265 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~  265 (453)
                      ..+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+...+.
T Consensus        40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (291)
T COG0457          40 AEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLE  119 (291)
T ss_pred             HHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            4444444444443311 13566777888888888888888888877652 233355666677777778888888888888


Q ss_pred             HHHHCCCCCChhhHHHHHH-HHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          266 ELLVLGLVPDVYTYNVYIN-GLCKQNNVEAGIKMIACMEELGS--KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGI  342 (453)
Q Consensus       266 ~m~~~g~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  342 (453)
                      ........+ ......... .+...|+++.+...+........  ......+......+...++.+.+...+....+...
T Consensus       120 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  198 (291)
T COG0457         120 KALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNP  198 (291)
T ss_pred             HHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCc
Confidence            887644332 222223333 68889999999999988865221  12334444555557778899999999988887733


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          343 VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       343 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ......+..+...+...++++.|...+......... ....+..+...+...|..+++...+.+....
T Consensus       199 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         199 DDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             ccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            323567788888888888899999999888775322 2333444444555777788888888887743

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=91.91  E-value=1.1  Score=32.12  Aligned_cols=62  Identities=15%  Similarity=0.217  Sum_probs=42.2

Q ss_pred             cchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 039177           61 PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIK  124 (453)
Q Consensus        61 ~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  124 (453)
                      ..-+..-+..+-..++.|++....+.+++|.+.+++..|.++++.+...-|-.  ..+|..+++
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            33455666777788889999999999999999999999999999888764322  226655544

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.79  E-value=6.4  Score=35.23  Aligned_cols=156  Identities=10%  Similarity=-0.029  Sum_probs=108.9

Q ss_pred             hcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCH
Q 039177          181 EQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD---GIKPDIVCYTMVLNGVIVQEDY  257 (453)
Q Consensus       181 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~g~~  257 (453)
                      ..|+.  .+|-..++++.+. .|.|...++..=++|.-.|+.+.-...+++....   +++-.+..-..+.-++...|-+
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 GRGKH--HEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccc--cHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            44555  5666677777765 4778889999999999999999999999888754   2222233333344455678999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          258 VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL---GSKPDVITYNTLLQALCKVRELNRLRELV  334 (453)
Q Consensus       258 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~~~~~~a~~~~  334 (453)
                      ++|++.-++..+.+ ..|..+-.+.....-..|++.++.++...-...   +--.-.+-|-...-.+...+.++.|+.+|
T Consensus       192 ~dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  192 DDAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hhHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999998888765 457777788888888999999998877654431   10011122333444566779999999999


Q ss_pred             HH-HHHC
Q 039177          335 KE-MKWK  340 (453)
Q Consensus       335 ~~-~~~~  340 (453)
                      +. |.++
T Consensus       271 D~ei~k~  277 (491)
T KOG2610|consen  271 DREIWKR  277 (491)
T ss_pred             HHHHHHH
Confidence            85 4444

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=91.65  E-value=8.9  Score=33.73  Aligned_cols=98  Identities=11%  Similarity=0.081  Sum_probs=47.2

Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-CCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-CCCCCHHHH
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD-GIKPDIVCY  244 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~  244 (453)
                      -|..+...+++......+.....--++.+-+... |-.++..+...+|..+++.+++.+-.++++..... +..-|...|
T Consensus       162 ~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW  241 (292)
T PF13929_consen  162 FDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPW  241 (292)
T ss_pred             eChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchH
Confidence            3455555555554442211112222233333222 23444555555666666666666666665555443 444455556


Q ss_pred             HHHHHHHHhcCCHHHHHHHH
Q 039177          245 TMVLNGVIVQEDYVKAEELF  264 (453)
Q Consensus       245 ~~ll~~~~~~g~~~~a~~~~  264 (453)
                      ..+|......|+..-...+.
T Consensus       242 ~~FI~li~~sgD~~~~~kiI  261 (292)
T PF13929_consen  242 AEFIKLIVESGDQEVMRKII  261 (292)
T ss_pred             HHHHHHHHHcCCHHHHHHHh
Confidence            66666666666654444433

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=91.63  E-value=9.1  Score=33.78  Aligned_cols=70  Identities=19%  Similarity=0.308  Sum_probs=37.7

Q ss_pred             HhcCCHHHHHHHH-HHHHHCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHH-HHHHHCCCCcCHHHHHHHHHHHHhcC
Q 039177          287 CKQNNVEAGIKMI-ACMEELGSKPDVI----TYNTLLQALCKVRELNRLRELV-KEMKWKGIVLNLQTYSIMIDGLASKG  360 (453)
Q Consensus       287 ~~~~~~~~a~~~~-~~m~~~~~~p~~~----~~~~li~~~~~~~~~~~a~~~~-~~~~~~~~~p~~~~~~~li~~~~~~g  360 (453)
                      .+-..+++..... ++|.+.++ |+..    .|+.++++--    |.+-.++. +..++     ...+|.-|+.+++..|
T Consensus       266 s~e~p~~evi~~VKee~k~~nl-Pe~eVi~ivWs~iMsave----WnKkeelva~qalr-----hlK~yaPLL~af~s~g  335 (412)
T KOG2297|consen  266 SEEDPVKEVILYVKEEMKRNNL-PETEVIGIVWSGIMSAVE----WNKKEELVAEQALR-----HLKQYAPLLAAFCSQG  335 (412)
T ss_pred             ccCCCHHHHHHHHHHHHHhcCC-CCceEEeeeHhhhhHHHh----hchHHHHHHHHHHH-----HHHhhhHHHHHHhcCC
Confidence            3444455555444 45555554 5543    5666666543    32222222 12222     3457888889999888


Q ss_pred             CHHHHH
Q 039177          361 DIIEAC  366 (453)
Q Consensus       361 ~~~~A~  366 (453)
                      +.+..+
T Consensus       336 ~sEL~L  341 (412)
T KOG2297|consen  336 QSELEL  341 (412)
T ss_pred             hHHHHH
Confidence            877543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.52  E-value=0.46  Score=26.85  Aligned_cols=23  Identities=17%  Similarity=0.118  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQ  231 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~  231 (453)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555555555555555555

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=91.51  E-value=9.1  Score=33.58  Aligned_cols=83  Identities=11%  Similarity=0.019  Sum_probs=54.3

Q ss_pred             CCCCCcchHHHHHHHhhhcCCCCChhhHHHHHHHHHh------cCC-----cchHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 039177           56 QIPKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAE------NSQ-----FCDISSVLDHIEKRENFETPEFIFIDLIK  124 (453)
Q Consensus        56 ~~~~~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~------~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~~li~  124 (453)
                      ..|-.++.+...+......-......+|...+..++.      +|.     -..|+++|..+....|-+.   .-+.++.
T Consensus        98 ~KPvt~ekLnraIdr~~k~ve~~~eee~~~~iscfgg~ev~~rqg~~vkWis~KA~ELFayLv~hkgk~v---~~~~~ie  174 (361)
T COG3947          98 PKPVTPEKLNRAIDRRLKRVELTAEEESGTQISCFGGTEVVLRQGQQVKWISRKALELFAYLVEHKGKEV---TSWEAIE  174 (361)
T ss_pred             cCCCCHHHHHHHHHHHhccccccchhccCeeeEeccceeeeccCCceeeehhhHHHHHHHHHHHhcCCcc---cHhHHHH
Confidence            4556677777777776654444555666666666652      111     2468899999988865433   4456778


Q ss_pred             HHHhcCChhHHHHHHhh
Q 039177          125 TYADAHRFQDSVNLFYK  141 (453)
Q Consensus       125 ~~~~~g~~~~A~~~~~~  141 (453)
                      ++....+..+|-..|..
T Consensus       175 ~lwpe~D~kka~s~lhT  191 (361)
T COG3947         175 ALWPEKDEKKASSLLHT  191 (361)
T ss_pred             HHccccchhhHHHHHHH
Confidence            88888888887777665

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=91.37  E-value=1.3  Score=31.47  Aligned_cols=63  Identities=14%  Similarity=0.233  Sum_probs=49.1

Q ss_pred             CcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 039177           60 QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIK  124 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  124 (453)
                      +..-+..-+..+-..+..|++....+.+++|.+.+++..|.++++.+...-|  .+..+|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            5556677778888889999999999999999999999999999998875522  24446655554

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.34  E-value=3.8  Score=31.12  Aligned_cols=89  Identities=15%  Similarity=0.023  Sum_probs=39.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHH---HHHHHHhcCC
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSI---MIDGLASKGD  361 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~---li~~~~~~g~  361 (453)
                      ....|+++.|++.|.+....- .-....||.-.+++.-.|+.++|++=+++..+. |.+ +...+.+   -...|-..|+
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHhCc
Confidence            344555555555555554421 113344555555555555555555555554443 222 2221111   1223444455


Q ss_pred             HHHHHHHHHHHHHCC
Q 039177          362 IIEACGLLEEALNKG  376 (453)
Q Consensus       362 ~~~A~~~~~~m~~~~  376 (453)
                      -+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            555555555444444

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=91.22  E-value=4.7  Score=33.01  Aligned_cols=61  Identities=8%  Similarity=0.200  Sum_probs=31.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV--ITYNTLLQALCKVRELNRLRELVKEMK  338 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~  338 (453)
                      .+..+...|++.|+.+.|.+.|.++.+....+..  ..+-.+|+.+.-.+++..+........
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            3444555555666666666666555554332222  234455555555555555555554443

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.

>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human

Probab=90.93  E-value=18  Score=36.02  Aligned_cols=146  Identities=16%  Similarity=0.110  Sum_probs=40.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...|..-+..+..+++..  ....+.+...-.-.+.....-++..|.+.|-.+.|..+.+.+-.+-.  ...-|..-+..
T Consensus       372 ~~lW~vai~yL~~c~~~g--~~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~  447 (566)
T PF07575_consen  372 HSLWQVAIGYLSSCPDEG--RERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSW  447 (566)
T ss_dssp             TTTHHHHHHHHHS-SSS---HHHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHCChhh--HHHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHH
Confidence            334444444444333222  33444444332334555667777888888888888888776655422  23356666677


Q ss_pred             HHhcCCHHHHHHHHHHHHHC----CCCCChhhHHHH---------HH---------HHHhCCCHHHHHHHHHHHhhCCCC
Q 039177          356 LASKGDIIEACGLLEEALNK----GLCTQSSMFDET---------IC---------GLCQRGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~----~~~~~~~~~~~l---------i~---------~~~~~g~~~~A~~~~~~m~~~~~~  413 (453)
                      +.++|+......+.+.+.+.    |...+....+.+         +.         -..+.|++.+|.+.+-.+.+.++.
T Consensus       448 ~~ra~d~~~v~~i~~~ll~~~~~~~~~~~~~ll~~i~~~~~~~~~L~fla~yreF~~~~~~~~~~~Aa~~Lv~Ll~~~~~  527 (566)
T PF07575_consen  448 FIRAGDYSLVTRIADRLLEEYCNNGEPLDDDLLDNIGSPMLLSQRLSFLAKYREFYELYDEGDFREAASLLVSLLKSPIA  527 (566)
T ss_dssp             HH------------------------------------------------------------------------------
T ss_pred             HHHCCCHHHHHHHHHHHHHHHhcCCCcccHHHHHHhcchhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHCCCCC
Confidence            77777777665555554432    221221111111         00         113447778887877777777777


Q ss_pred             CCHHHHHHHHhc
Q 039177          414 PGARVWEALLLS  425 (453)
Q Consensus       414 p~~~~~~~ll~a  425 (453)
                      |...-..-|..+
T Consensus       528 Pk~f~~~LL~d~  539 (566)
T PF07575_consen  528 PKSFWPLLLCDA  539 (566)
T ss_dssp             ------------
T ss_pred             cHHHHHHHHHHH
Confidence            776655555444

Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.89  E-value=0.66  Score=26.20  Aligned_cols=22  Identities=18%  Similarity=0.117  Sum_probs=9.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHH
Q 039177          350 SIMIDGLASKGDIIEACGLLEE  371 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~  371 (453)
                      ..|...|.+.|++++|+.++++
T Consensus         3 ~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    3 NNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Confidence            3444444444444444444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=90.85  E-value=12  Score=33.90  Aligned_cols=197  Identities=11%  Similarity=0.042  Sum_probs=108.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHH-------HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC---C
Q 039177          207 VDYTNVIRSLVKKEKVFDALGIL-------NQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL-GLVP---D  275 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~-------~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~~~---~  275 (453)
                      .++..+..+.++.|.+++++..-       .+..+.  ..--..|..+.+++-+..++.+++.+-+.-... |..+   .
T Consensus        44 ~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds--~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~  121 (518)
T KOG1941|consen   44 RVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDS--DFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLG  121 (518)
T ss_pred             HHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCccccc
Confidence            34555566666666666554421       111111  011234555555666666666666655544331 1111   1


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCcCH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSK-----PDVITYNTLLQALCKVRELNRLRELVKEMKW----KGIVLNL  346 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-----p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~p~~  346 (453)
                      -....++-.++...+.++++++.|+...+.-..     ....+|..|-+.|.+..++++|.-+.....+    .++. |.
T Consensus       122 gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~  200 (518)
T KOG1941|consen  122 GQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DW  200 (518)
T ss_pred             chhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-ch
Confidence            123344666777777888888888776542111     1234678888888888888888766554433    2333 22


Q ss_pred             H-HHH-----HHHHHHHhcCCHHHHHHHHHHHHHCCC-CCChhh----HHHHHHHHHhCCCHHHHHHHHHH
Q 039177          347 Q-TYS-----IMIDGLASKGDIIEACGLLEEALNKGL-CTQSSM----FDETICGLCQRGLVRKALELLKQ  406 (453)
Q Consensus       347 ~-~~~-----~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~----~~~li~~~~~~g~~~~A~~~~~~  406 (453)
                      . -|.     .|.-++-..|++-+|.+..++..+..+ .-|..+    .-.+.+.|...|+.+.|+.-+++
T Consensus       201 ~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  201 SLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             hHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            1 222     233456677888778777776654311 113333    34456677788888887766655

>PRK09687 putative lyase; Provisional

Probab=90.82  E-value=11  Score=33.45  Aligned_cols=235  Identities=15%  Similarity=0.032  Sum_probs=152.5

Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh----hHHHHHHHHHHhCCCCCCH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV----FDALGILNQMKSDGIKPDI  241 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~~~~~~~  241 (453)
                      .+|.......+.++...|..   .+...+..+...   +|...-...+.++.+.|+.    +++...+..+...  .++.
T Consensus        34 d~d~~vR~~A~~aL~~~~~~---~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~  105 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQ---DVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSA  105 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcc---hHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCH
Confidence            35777777778888877764   455555555443   4666666777888888764    4677777776443  3455


Q ss_pred             HHHHHHHHHHHhcCCH-----HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDY-----VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNT  316 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~-----~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  316 (453)
                      ..-...+.++...+..     ..+...+.....   .++..+-...+.++++.++ +.+...+-.+.+.   +|..+-..
T Consensus       106 ~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~  178 (280)
T PRK09687        106 CVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNW  178 (280)
T ss_pred             HHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHH
Confidence            5555666666655421     223333333333   3466666677888888887 4566666666653   56666677


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          317 LLQALCKVR-ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       317 li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      .+.++++.+ +...+...+..+...   ++..+-...+.++.+.|+ ..|...+-+..+.+.     .....+.++...|
T Consensus       179 A~~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~~-----~~~~a~~ALg~ig  249 (280)
T PRK09687        179 AAFALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLALRKD-KRVLSVLIKELKKGT-----VGDLIIEAAGELG  249 (280)
T ss_pred             HHHHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHHccCC-hhHHHHHHHHHcCCc-----hHHHHHHHHHhcC
Confidence            777777653 244566666666643   477778888899999988 456666666655542     2346688899999


Q ss_pred             CHHHHHHHHHHHhhCCCCCCHHHHHHHHhchh
Q 039177          396 LVRKALELLKQMADKDVSPGARVWEALLLSSV  427 (453)
Q Consensus       396 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~  427 (453)
                      .. +|+..+..+.+.  .||..+-...+.+|.
T Consensus       250 ~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        250 DK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             CH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            85 788888888843  567777777776663

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.69  E-value=3.8  Score=36.20  Aligned_cols=104  Identities=13%  Similarity=0.188  Sum_probs=78.7

Q ss_pred             CCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 039177          201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD---GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVY  277 (453)
Q Consensus       201 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~  277 (453)
                      |.+.+..+...++..-....++++++..+-+++..   ...|+...+ ++++.+. .-++++++.++..=++.|+-||.+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccchh
Confidence            44556666777777777788899999998888753   122332222 3344443 356779999998889999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      +++.+|+.+.+.+++.+|.++.-.|....
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999999988877643

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=90.62  E-value=7.4  Score=30.94  Aligned_cols=52  Identities=8%  Similarity=0.118  Sum_probs=25.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPDVITYNT-LLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      .+.++.+++..++..+.-.  .|....... -...+.+.|++.+|.++|+++.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            3455566666666655542  233322211 122345556666666666665544

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=90.11  E-value=10  Score=31.77  Aligned_cols=191  Identities=16%  Similarity=0.028  Sum_probs=139.0

Q ss_pred             cCChhHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhcCCHHHHH
Q 039177          219 KEKVFDALGILNQMKSDGIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLVL-GLVPDVYTYNVYINGLCKQNNVEAGI  296 (453)
Q Consensus       219 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~~~~~~a~  296 (453)
                      .+....+...+......... .....+......+...+++..+...+...... ........+......+...+....+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45566666776666655332 13567778888899999999999998887752 23455666777777888888999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHCCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          297 KMIACMEELGSKPDVITYNTLLQ-ALCKVRELNRLRELVKEMKWKGI--VLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       297 ~~~~~m~~~~~~p~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      ..+.........+ ......... .+...|+++.+...+........  ......+......+...++.+.|...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            9999988754333 122333333 78999999999999999866322  1234455555555778899999999999998


Q ss_pred             HCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          374 NKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       374 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ..........+..+...+...+.++.|...+......
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  231 (291)
T COG0457         195 KLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL  231 (291)
T ss_pred             hhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh
Confidence            7642214566777888899999999999999998843

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.11  E-value=11  Score=32.20  Aligned_cols=25  Identities=16%  Similarity=0.130  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMK  233 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~  233 (453)
                      |.--..+|....++++|...+.+..
T Consensus        34 yekAAvafRnAk~feKakdcLlkA~   58 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLKAS   58 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHH
Confidence            4445556666677777776666554

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.85  E-value=4.3  Score=39.24  Aligned_cols=152  Identities=10%  Similarity=0.004  Sum_probs=101.2

Q ss_pred             HhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChH
Q 039177           91 AENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGK  170 (453)
Q Consensus        91 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  170 (453)
                      .-.|+++.|..++..+.        ....+.+.+.+-+.|-.++|+++--.                         ||. 
T Consensus       597 vmrrd~~~a~~vLp~I~--------k~~rt~va~Fle~~g~~e~AL~~s~D-------------------------~d~-  642 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIP--------KEIRTKVAHFLESQGMKEQALELSTD-------------------------PDQ-  642 (794)
T ss_pred             hhhccccccccccccCc--------hhhhhhHHhHhhhccchHhhhhcCCC-------------------------hhh-
Confidence            34566666665554433        23566777888888888888765321                         221 


Q ss_pred             hHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 039177          171 TCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNG  250 (453)
Q Consensus       171 ~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~  250 (453)
                      -|    ....+.|++  +.|.++..+.      -+..-|..|.++..+.+++..|.+.|.....         |..|+-.
T Consensus       643 rF----elal~lgrl--~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl  701 (794)
T KOG0276|consen  643 RF----ELALKLGRL--DIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLL  701 (794)
T ss_pred             hh----hhhhhcCcH--HHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhh
Confidence            12    223456777  7777665432      3467799999999999999999999987763         4567777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          251 VIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACME  303 (453)
Q Consensus       251 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  303 (453)
                      +...|+-+....+-....+.|. .| .+    ..+|...|+++++.+++..-.
T Consensus       702 ~t~~g~~~~l~~la~~~~~~g~-~N-~A----F~~~~l~g~~~~C~~lLi~t~  748 (794)
T KOG0276|consen  702 YTSSGNAEGLAVLASLAKKQGK-NN-LA----FLAYFLSGDYEECLELLISTQ  748 (794)
T ss_pred             hhhcCChhHHHHHHHHHHhhcc-cc-hH----HHHHHHcCCHHHHHHHHHhcC
Confidence            8888888877777667777663 32 22    235677899998888776543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=89.68  E-value=5.7  Score=28.33  Aligned_cols=45  Identities=11%  Similarity=0.130  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ++.+-++.+...++.|++.+..+-+++|.+.+++.-|+++|+-.+
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444455455555665555555666666666666666655544

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.

>PRK11906 transcriptional regulator; Provisional

Probab=89.57  E-value=19  Score=34.09  Aligned_cols=62  Identities=11%  Similarity=-0.105  Sum_probs=25.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          310 DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      |......+..+..-.++++.|...|++....++. ...+|......+.-+|+.++|.+.+++.
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3333334444444444444444444444444322 2223333333333344444444444443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.52  E-value=9.7  Score=30.66  Aligned_cols=23  Identities=22%  Similarity=0.112  Sum_probs=10.6

Q ss_pred             HHHHHHhCCCHHHHHHHHHHHhh
Q 039177          387 TICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      |--+-.+.|++.+|.++|..+.+
T Consensus       173 LglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         173 LGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HhHHHHhccchHHHHHHHHHHHc
Confidence            33333444555555555554443

>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=89.31  E-value=4.2  Score=33.30  Aligned_cols=96  Identities=13%  Similarity=0.018  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHH--H
Q 039177          312 ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN--LQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT-QSSMFD--E  386 (453)
Q Consensus       312 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~--~  386 (453)
                      ..+..+...|++.|+.+.|.+.|..+.+....+.  ...+-.+|+.....|++..+...+.+....--.. +...-+  .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            3678888999999999999999999888754433  3456778888888899999988888776542111 222222  2


Q ss_pred             HHH--HHHhCCCHHHHHHHHHHH
Q 039177          387 TIC--GLCQRGLVRKALELLKQM  407 (453)
Q Consensus       387 li~--~~~~~g~~~~A~~~~~~m  407 (453)
                      ...  .+...|++.+|-+.|-+.
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            222  245667888888877665

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.25  E-value=0.71  Score=25.71  Aligned_cols=21  Identities=29%  Similarity=0.409  Sum_probs=9.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHH
Q 039177          345 NLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +...|..+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            444444444444444444444

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.35  E-value=17  Score=31.99  Aligned_cols=71  Identities=14%  Similarity=0.069  Sum_probs=51.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-----CCCCCCHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD-----KDVSPGARVW  419 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~  419 (453)
                      +++.....|..+|.+.+|.++.+.....+ +.+...+-.++..+...|+--.|.+-++.+.+     .|+..+...+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            44556678888999999999998887765 45666778888889999987666666666542     3666665544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=87.65  E-value=23  Score=32.65  Aligned_cols=294  Identities=15%  Similarity=0.115  Sum_probs=176.1

Q ss_pred             HHHHHHHHHh--cCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHH--hcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           83 YHFVIKTLAE--NSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYA--DAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        83 ~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      |..|-..+..  .|+-..|.++-.+..+.  +..|..-...|+.+-.  -.|+.++|.+-|+.|..              
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~--------------  148 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD--------------  148 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc--------------
Confidence            4444444433  56666666655554432  3344444445554433  45888888888877553              


Q ss_pred             HHHHCCCccChHhHHHHHH----HHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          159 CMINDGFCVDGKTCSLILS----SVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~----~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                               |..|-..=|+    ..-+.|.-  +.+.+.-+.....- +.-...+.+.+...+..|+++.|+++++.-+.
T Consensus       149 ---------dPEtRllGLRgLyleAqr~Gar--eaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~  216 (531)
T COG3898         149 ---------DPETRLLGLRGLYLEAQRLGAR--EAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRA  216 (531)
T ss_pred             ---------ChHHHHHhHHHHHHHHHhcccH--HHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence                     2333222222    23455665  66666655554432 22345688999999999999999999988775


Q ss_pred             CC-CCCCHH--HHHHHHHHHH---hcCCHHHHHHHHHHHHHCCCCCChhhH-HHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          235 DG-IKPDIV--CYTMVLNGVI---VQEDYVKAEELFDELLVLGLVPDVYTY-NVYINGLCKQNNVEAGIKMIACMEELGS  307 (453)
Q Consensus       235 ~~-~~~~~~--~~~~ll~~~~---~~g~~~~a~~~~~~m~~~g~~~~~~~~-~~li~~~~~~~~~~~a~~~~~~m~~~~~  307 (453)
                      .. +.+++.  .-..|+.+-.   -..+...|...-.+..+  +.||..-- .....++.+.|++.++-.+++.+-+...
T Consensus       217 ~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~eP  294 (531)
T COG3898         217 AKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEP  294 (531)
T ss_pred             HHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCC
Confidence            42 333332  1222332221   12355666665555544  34654432 2345578899999999999999999765


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 039177          308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWK-GIVL-NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFD  385 (453)
Q Consensus       308 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  385 (453)
                      .|+.  +  .+..+.+.|+  .++.-++...+. .++| +..+--.+..+-...|++..|..--+....  ..|....|.
T Consensus       295 HP~i--a--~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~l  366 (531)
T COG3898         295 HPDI--A--LLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYL  366 (531)
T ss_pred             ChHH--H--HHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHH
Confidence            4543  2  2233445554  333333333222 2233 556667777888889999988877766654  467778887


Q ss_pred             HHHHHHH-hCCCHHHHHHHHHHHhhCCCCC
Q 039177          386 ETICGLC-QRGLVRKALELLKQMADKDVSP  414 (453)
Q Consensus       386 ~li~~~~-~~g~~~~A~~~~~~m~~~~~~p  414 (453)
                      .|.+.-. ..|+-.++..++.+..+..-.|
T Consensus       367 LlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         367 LLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            7776654 4499999999999987654444

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.48  E-value=32  Score=34.17  Aligned_cols=180  Identities=16%  Similarity=0.044  Sum_probs=91.8

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHH-----HHhcCCHHHHHHHHHHHHH-------CCCCCChhhHHHHHHHHHhc
Q 039177          222 VFDALGILNQMKSDGIKPDIVCYTMVLNG-----VIVQEDYVKAEELFDELLV-------LGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~-----~~~~g~~~~a~~~~~~m~~-------~g~~~~~~~~~~li~~~~~~  289 (453)
                      ...|.++++...+.|.   ...-..+..+     +....+.+.|+.+|+...+       .|   ......-+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g~---~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH---SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhcc---hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            4566667766666542   2222222222     3344577777777777655       33   333444555555553


Q ss_pred             C-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH----hc
Q 039177          290 N-----NVEAGIKMIACMEELGSKPDVITYNTLLQALCK-VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA----SK  359 (453)
Q Consensus       290 ~-----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~----~~  359 (453)
                      .     +.+.|..++....+.|. |+...+-..+..... ..+...|.++|...-+.|..   ..+-.+..+|.    ..
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~---~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI---LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh---HHHHHHHHHHHhCCCcC
Confidence            2     55667777777776653 344433333333322 24566777777777777643   22222222222    12


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCC
Q 039177          360 GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       360 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  413 (453)
                      -+...|..++.+..++| .|...--...+..+.. +.++.+.-.+..+.+.|..
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE  429 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh
Confidence            35667777777777766 2221111112223333 5666666655555554443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=87.44  E-value=13  Score=29.59  Aligned_cols=101  Identities=12%  Similarity=0.022  Sum_probs=61.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          319 QALCKVRELNRLRELVKEMKWKGIV-LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      ..-.+.++.+++..++..+.-..+. |...++..  ..+...|++.+|.++|+++.+..  |....-..|+..|....+-
T Consensus        18 ~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcCC
Confidence            3445778999999999988776433 23334443  34578899999999999987654  3333334444444444333


Q ss_pred             HHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          398 RKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      ..=..+-+++.+.+-.|+......-+
T Consensus        94 ~~Wr~~A~evle~~~d~~a~~Lv~~L  119 (160)
T PF09613_consen   94 PSWRRYADEVLESGADPDARALVRAL  119 (160)
T ss_pred             hHHHHHHHHHHhcCCChHHHHHHHHH
Confidence            33344455566666566655554433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=87.30  E-value=28  Score=33.32  Aligned_cols=159  Identities=14%  Similarity=0.091  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      ..-+++..+..+....-++.+-.+|+..|  .+...+..++..|..+ ..++-..+++++.+..+. |++.-..|..-|-
T Consensus        68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~yE  143 (711)
T COG1747          68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKYE  143 (711)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHHH
Confidence            33445555555555555555555555543  3444555555555554 334445555555443321 2222223333332


Q ss_pred             hcCCHHHHHHHHHHHHHCCCC-----cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCChhhHHHHHHHHHhCCC
Q 039177          323 KVRELNRLRELVKEMKWKGIV-----LNLQTYSIMIDGLASKGDIIEACGLLEEALNK-GLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~  396 (453)
                      + ++.+.+..+|..+..+-+.     .=...|..|+..-  ..+.|....+..++... |..--...+.-+-.-|....+
T Consensus       144 k-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN  220 (711)
T COG1747         144 K-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENEN  220 (711)
T ss_pred             H-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccC
Confidence            2 4444444444444433110     0011333333211  23444444444444332 222333334444444555555


Q ss_pred             HHHHHHHHHHHh
Q 039177          397 VRKALELLKQMA  408 (453)
Q Consensus       397 ~~~A~~~~~~m~  408 (453)
                      +++|++++....
T Consensus       221 ~~eai~Ilk~il  232 (711)
T COG1747         221 WTEAIRILKHIL  232 (711)
T ss_pred             HHHHHHHHHHHh
Confidence            555555555443

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.26  E-value=14  Score=29.79  Aligned_cols=135  Identities=12%  Similarity=0.079  Sum_probs=71.5

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh-hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHH-HHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM-VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIV-CYT  245 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~  245 (453)
                      ....|...|+. ++.+..  ++|+.-|..+.+.|...-. ...-.+.....+.|+-..|+..|++.-.....|-.. -..
T Consensus        58 sgd~flaAL~l-A~~~k~--d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~A  134 (221)
T COG4649          58 SGDAFLAALKL-AQENKT--DDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLA  134 (221)
T ss_pred             chHHHHHHHHH-HHcCCc--hHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHH
Confidence            33455555553 344444  6777777777776532111 112222334556677777777777776554444322 111


Q ss_pred             HHH--HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          246 MVL--NGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL  305 (453)
Q Consensus       246 ~ll--~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  305 (453)
                      -|=  -.+..+|.+++.....+-+-..+-+.-...-.+|--+-.+.|++.+|...|..+...
T Consensus       135 Rlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         135 RLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            111  123456666666666665554443333444455555666677777777777666653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.13  E-value=1.2  Score=24.79  Aligned_cols=32  Identities=6%  Similarity=0.207  Sum_probs=24.4

Q ss_pred             HHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHH
Q 039177          103 LDHIEKRENFETPEFIFIDLIKTYADAHRFQDSV  136 (453)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  136 (453)
                      |++..+..  |.+...|+.+...|...|++++|+
T Consensus         2 y~kAie~~--P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELN--PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHC--CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            34444443  668889999999999999998885

>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=87.02  E-value=11  Score=31.28  Aligned_cols=71  Identities=15%  Similarity=-0.032  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCChhhHHHHHHHHHhcCCHHHH
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL---GLVPDVYTYNVYINGLCKQNNVEAG  295 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~~~~~~a  295 (453)
                      .|.+.|-.+...+.--++.....|..-|. ..+.+++..++...++.   +-.+|+..+.+|.+.|.+.|+.+.|
T Consensus       124 ~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  124 EALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            44444444444333323333332222222 34444444444444331   1134444555555555555554444

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=86.86  E-value=8.7  Score=31.82  Aligned_cols=20  Identities=5%  Similarity=-0.062  Sum_probs=8.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHH
Q 039177          345 NLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~  364 (453)
                      |+..+.+|+..|.+.|+++.
T Consensus       177 n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  177 NPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             CHHHHHHHHHHHHHhcchhh
Confidence            34444444444444444333

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.25  E-value=2.2  Score=24.61  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=11.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      +++.|...|...|++++|..++++.
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~a   28 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEA   28 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHH
Confidence            3444444444444444444444443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.12  E-value=19  Score=30.26  Aligned_cols=54  Identities=17%  Similarity=0.103  Sum_probs=26.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      ++.+.+.+.+++++...++-++..+. |..+-..+++.|+-.|++++|..-++-.
T Consensus         8 ~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           8 ISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            34444445555555555544444332 3344445555555555555555444433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=86.05  E-value=33  Score=32.84  Aligned_cols=74  Identities=12%  Similarity=0.102  Sum_probs=52.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CcCHHHHHHHH
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGI-VLNLQTYSIMI  353 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~li  353 (453)
                      ..+..++-+.|+.++|.+.|++|.+....- .......|+.++...+.+.++..++..-.+... +.-...|+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            345556678899999999999998643221 334778899999999999999999987644322 22334555543

The molecular function of this protein is uncertain.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=85.62  E-value=4.2  Score=30.53  Aligned_cols=50  Identities=14%  Similarity=0.285  Sum_probs=41.1

Q ss_pred             CcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHc
Q 039177           60 QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKR  109 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  109 (453)
                      +..-+...+..+-.+++.|++......+++|.+.+++..|.++|+-+...
T Consensus        64 D~wEvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   64 DGWEVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             hHHHHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            44456667777888888999999999999999999999999999888765

>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=85.46  E-value=0.38  Score=37.79  Aligned_cols=83  Identities=14%  Similarity=0.167  Sum_probs=44.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 039177          212 VIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       212 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  291 (453)
                      +|..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++.       .+..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcch
Confidence            4455555666666666666666555444566666666666666655555555541       112333444555555555


Q ss_pred             HHHHHHHHHH
Q 039177          292 VEAGIKMIAC  301 (453)
Q Consensus       292 ~~~a~~~~~~  301 (453)
                      ++++.-++..
T Consensus        86 ~~~a~~Ly~~   95 (143)
T PF00637_consen   86 YEEAVYLYSK   95 (143)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            5555554444

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=85.44  E-value=33  Score=32.35  Aligned_cols=284  Identities=13%  Similarity=0.079  Sum_probs=135.9

Q ss_pred             HHHhcCCcchHHHHHHHHHHcCCCCCC------HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHH
Q 039177           89 TLAENSQFCDISSVLDHIEKRENFETP------EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIN  162 (453)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~  162 (453)
                      .+-+.+++.++..+|.++.+..  ..+      ...-+.++++|...+ ++........                  +.+
T Consensus        15 ~Lqkq~~~~esEkifskI~~e~--~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~------------------l~~   73 (549)
T PF07079_consen   15 ILQKQKKFQESEKIFSKIYDEK--ESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLME------------------LRQ   73 (549)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHh--hcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHH------------------HHH
Confidence            3567889999999999887752  222      233456667766532 2222222211                  221


Q ss_pred             CCCccChHhHHHHHHHH--HhcCCCChHHHHHHHHHHHHc--CCCc------------ChhhHHHHHHHHHhcCChhHHH
Q 039177          163 DGFCVDGKTCSLILSSV--CEQRDLSSDELLGFVQEMKKL--GFCF------------GMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       163 ~~~~p~~~~~~~ll~~~--~~~~~~~~~~a~~~~~~~~~~--g~~~------------~~~~~~~li~~~~~~g~~~~a~  226 (453)
                        ..| ...|..+..++  .+.+..  .+|.+.+......  +..+            |...-+..+.++...|++.++.
T Consensus        74 --~~~-~s~~l~LF~~L~~Y~~k~~--~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR  148 (549)
T PF07079_consen   74 --QFG-KSAYLPLFKALVAYKQKEY--RKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGR  148 (549)
T ss_pred             --hcC-CchHHHHHHHHHHHHhhhH--HHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHH
Confidence              122 23344444443  345555  7777777665554  2222            2222356677788888998888


Q ss_pred             HHHHHHHhCC----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          227 GILNQMKSDG----IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV-YTYNVYINGLCKQNNVEAGIKMIAC  301 (453)
Q Consensus       227 ~~~~~m~~~~----~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~  301 (453)
                      .+++++...-    ..-+..+|+.++-.+.+.        .|-++.+.. ..|. .-|--+|..|.+.=+      .++.
T Consensus       149 ~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS--------YfLEl~e~~-s~dl~pdyYemilfY~kki~------~~d~  213 (549)
T PF07079_consen  149 AILNRIIERLLKRECEWNSDMYDRAVLMLSRS--------YFLELKESM-SSDLYPDYYEMILFYLKKIH------AFDQ  213 (549)
T ss_pred             HHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH--------HHHHHHHhc-ccccChHHHHHHHHHHHHHH------HHhh
Confidence            8888887543    335777777766555432        333332211 1111 112223333322211      1111


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          302 MEELGSKPDVITYNTLLQALCKVR--ELNRLRELVKEMKWKGIVLNLQ-TYSIMIDGLASKGDIIEACGLLEEALNKGLC  378 (453)
Q Consensus       302 m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  378 (453)
                      -.-..+-|.......++....-..  .+.--.+++..-...-+.|+-. ....|+..+.+  +.+++..+.+.+....+.
T Consensus       214 ~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~  291 (549)
T PF07079_consen  214 RPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIE  291 (549)
T ss_pred             chHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHH
Confidence            111112344444444444332211  1222223333223333444432 23344444443  445555555444332211


Q ss_pred             ----CChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHH
Q 039177          379 ----TQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGAR  417 (453)
Q Consensus       379 ----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  417 (453)
                          --..+|..++....+.++..+|.+.+.-+.  -+.|+..
T Consensus       292 ~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~--~ldp~~s  332 (549)
T PF07079_consen  292 KLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLK--ILDPRIS  332 (549)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH--hcCCcch
Confidence                113356666777777777777777777665  2344444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=85.36  E-value=0.31  Score=38.31  Aligned_cols=84  Identities=18%  Similarity=0.132  Sum_probs=46.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      +|..+.+.+.++....+++.+...+..-+....+.++..|++.+..++..++++.   .    +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~---~----~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT---S----NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS---S----SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc---c----cccCHHHHHHHHHhcch
Confidence            4555556666666666666666555444566666777777776666666666551   1    11222345555566666


Q ss_pred             HHHHHHHHHHH
Q 039177          362 IIEACGLLEEA  372 (453)
Q Consensus       362 ~~~A~~~~~~m  372 (453)
                      +++|.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66665555543

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.36  E-value=2.1  Score=24.71  Aligned_cols=26  Identities=15%  Similarity=0.224  Sum_probs=13.8

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMK  233 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~  233 (453)
                      +++.|...|...|++++|..++++..
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            45555555555555555555555544

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=85.30  E-value=29  Score=31.63  Aligned_cols=231  Identities=10%  Similarity=0.004  Sum_probs=124.1

Q ss_pred             cCCcchHHHHHHHHHHcC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHh
Q 039177           93 NSQFCDISSVLDHIEKRE-NFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKT  171 (453)
Q Consensus        93 ~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  171 (453)
                      ..+.+.|+..+......- .......++..+..+.++.|.+++++..--.           .++.+.+.....  .--..
T Consensus        19 s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~s-----------qi~~a~~~~ds~--~~~ea   85 (518)
T KOG1941|consen   19 SNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVS-----------QIDTARELEDSD--FLLEA   85 (518)
T ss_pred             CchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHH-----------HHHHHHHHHHHH--HHHHH
Confidence            444555555554444321 0011223667777788888877776653211           111122121110  01123


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHc-CCCc---ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-----CCCCCHH
Q 039177          172 CSLILSSVCEQRDLSSDELLGFVQEMKKL-GFCF---GMVDYTNVIRSLVKKEKVFDALGILNQMKSD-----GIKPDIV  242 (453)
Q Consensus       172 ~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~~~~~~  242 (453)
                      |..+-+++-+..++  .+++.+-..-... |..+   -....-++..++...+.++++++.|+...+-     +......
T Consensus        86 ~lnlar~~e~l~~f--~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq  163 (518)
T KOG1941|consen   86 YLNLARSNEKLCEF--HKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ  163 (518)
T ss_pred             HHHHHHHHHHHHHh--hhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence            44455555555444  4444443332221 2112   1123345667777778889999988887652     1222345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCChh-hH-----HHHHHHHHhcCCHHHHHHHHHHHHH----CCCC
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLV----LGLVPDVY-TY-----NVYINGLCKQNNVEAGIKMIACMEE----LGSK  308 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~~~~~-~~-----~~li~~~~~~~~~~~a~~~~~~m~~----~~~~  308 (453)
                      .|-.|-+.|.+..|+++|.-+.....+    .++. |.. -|     -.|.-++...|.+..|.+.-++..+    .|-.
T Consensus       164 vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~-d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdr  242 (518)
T KOG1941|consen  164 VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLK-DWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDR  242 (518)
T ss_pred             hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcC-chhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCCh
Confidence            777888889999999988876665433    2221 211 12     2233456677777777777666543    3422


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          309 PD-VITYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       309 p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                      +. ......+.+.|-..|+.+.|..-|++...
T Consensus       243 a~~arc~~~~aDIyR~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  243 ALQARCLLCFADIYRSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccHhHHHHHHHHHHH
Confidence            21 23455667788889999988877776543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=84.89  E-value=32  Score=31.65  Aligned_cols=65  Identities=12%  Similarity=0.039  Sum_probs=45.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP---DVYTYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      ...+|..+...+.+.|.++.|...+..+...+...   +....-.-.......|+..+|...++...+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55677788888888888888888888877643211   233444445556677888888888877776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=84.81  E-value=32  Score=31.63  Aligned_cols=65  Identities=15%  Similarity=0.129  Sum_probs=42.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          345 NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT---QSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ...+|..+...+.+.|.++.|...+..+...+...   ...+.-.-+..+...|+.++|+..+++..+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44567777778888888888888887776643111   223333345566677788888887777765

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.45  E-value=3.5  Score=22.56  Aligned_cols=27  Identities=26%  Similarity=0.267  Sum_probs=12.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +|..+..+|...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344444444555555555555544443

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 ....

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.04  E-value=18  Score=28.25  Aligned_cols=79  Identities=15%  Similarity=0.169  Sum_probs=44.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCChhhHHHHHHHHHhCCC-HHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          350 SIMIDGLASKGDIIEACGLLEEALNKG-----LCTQSSMFDETICGLCQRGL-VRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      +.++.-.+..+.+.....+++.+....     -..+...|.+++.+..+..- ---+..+|+.|++.+++++..-|..++
T Consensus        43 N~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li  122 (145)
T PF13762_consen   43 NCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLI  122 (145)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            444444444445554444444442110     02344567777777755554 344566677777767777777777777


Q ss_pred             hchhc
Q 039177          424 LSSVS  428 (453)
Q Consensus       424 ~a~~~  428 (453)
                      .+|.+
T Consensus       123 ~~~l~  127 (145)
T PF13762_consen  123 KAALR  127 (145)
T ss_pred             HHHHc
Confidence            77643

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.91  E-value=2.7  Score=23.04  Aligned_cols=27  Identities=15%  Similarity=0.119  Sum_probs=13.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                      +|..+...|...|++++|+..|++..+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            344445555555555555555555443

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 ....

>PHA02875 ankyrin repeat protein; Provisional

Probab=83.30  E-value=22  Score=33.70  Aligned_cols=16  Identities=13%  Similarity=0.239  Sum_probs=8.3

Q ss_pred             HHHHHHHHHCCCccCh
Q 039177          154 IEILNCMINDGFCVDG  169 (453)
Q Consensus       154 ~~~~~~m~~~~~~p~~  169 (453)
                      .++++.+.+.|..|+.
T Consensus        15 ~~iv~~Ll~~g~~~n~   30 (413)
T PHA02875         15 LDIARRLLDIGINPNF   30 (413)
T ss_pred             HHHHHHHHHCCCCCCc
Confidence            3445555555655544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.22  E-value=2.2  Score=23.25  Aligned_cols=23  Identities=17%  Similarity=0.079  Sum_probs=10.5

Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHh
Q 039177          386 ETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       386 ~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      .+...|.+.|++++|++.|++..
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHH
Confidence            33444445555555555554444

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 ....

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=83.10  E-value=60  Score=33.48  Aligned_cols=196  Identities=13%  Similarity=0.052  Sum_probs=108.5

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHH-------HHHHHHHH-HHhcCCHHHHHHHHHHHHHC----CCCCChhhHHHH
Q 039177          215 SLVKKEKVFDALGILNQMKSDGIKPDIV-------CYTMVLNG-VIVQEDYVKAEELFDELLVL----GLVPDVYTYNVY  282 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~-------~~~~ll~~-~~~~g~~~~a~~~~~~m~~~----g~~~~~~~~~~l  282 (453)
                      ......++++|..+..++...-..|+..       .|+.+-.. ....|+++.|.++-+.....    -..+....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            3445678899999888887653333222       33333222 23458889988888776542    223455666777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHH--HHHHhcCC--HHHHHHHHHHHHHC-----CC-CcCHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVIT---YNTLL--QALCKVRE--LNRLRELVKEMKWK-----GI-VLNLQTY  349 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li--~~~~~~~~--~~~a~~~~~~~~~~-----~~-~p~~~~~  349 (453)
                      ..+..-.|++++|..+..+..+..-.-++..   |..+.  ..+...|+  +.+....|......     .. .+-..++
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r  583 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIR  583 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHH
Confidence            7888889999999988877665322233333   33332  23445663  33333344433322     11 1223455


Q ss_pred             HHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCChhhH--HHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          350 SIMIDGLASK-GDIIEACGLLEEALNKGLCTQSSMF--DETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       350 ~~li~~~~~~-g~~~~A~~~~~~m~~~~~~~~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ..+..++.+. +...+|..-+.--......|-...+  ..|+..+...|+.++|...++++...
T Consensus       584 ~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l  647 (894)
T COG2909         584 AQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERL  647 (894)
T ss_pred             HHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            5566666552 1122222222222222222222222  25677888899999999999998764

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=82.91  E-value=46  Score=31.99  Aligned_cols=180  Identities=8%  Similarity=0.062  Sum_probs=120.5

Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT  245 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  245 (453)
                      ..|.....+++..++.....  .-+..+..+|...|  .+-..|-.++..|... ..++-..+|+++.+..+. |++.-.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~--~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~R  136 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKN--QIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGR  136 (711)
T ss_pred             cccchHHHHHHHHhccchHH--HHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHH
Confidence            34666777888888877777  77888888888877  6677888899999888 567788888888887654 555445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCC-----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHH
Q 039177          246 MVLNGVIVQEDYVKAEELFDELLVLGLV-----PDVYTYNVYINGLCKQNNVEAGIKMIACMEE-LGSKPDVITYNTLLQ  319 (453)
Q Consensus       246 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~li~  319 (453)
                      .|..-|-+ ++...+...|.....+=+.     .-...|.-++..  -..+.|....+...+.. .|...-.+.+--+-.
T Consensus       137 eLa~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~  213 (711)
T COG1747         137 ELADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYK  213 (711)
T ss_pred             HHHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHH
Confidence            55555544 7888888888877653221     012245444432  13456666666666654 333344556666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      -|....++++|++++..+.+.+-+ |...-..+|.-
T Consensus       214 ~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~  248 (711)
T COG1747         214 KYSENENWTEAIRILKHILEHDEK-DVWARKEIIEN  248 (711)
T ss_pred             HhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHH
Confidence            788888999999999988877544 55555555544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=82.38  E-value=16  Score=26.42  Aligned_cols=47  Identities=15%  Similarity=0.024  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                      -+..+-++.+....+.|+..+..+.+++|.+.+++..|+++|+-.+.
T Consensus        27 we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   27 WELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            34444455555555556666666666666666666666666655554

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 ....

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=82.08  E-value=53  Score=32.13  Aligned_cols=302  Identities=10%  Similarity=0.014  Sum_probs=161.6

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHH
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNC  159 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~  159 (453)
                      -..|+.+|.---...+.+.+..+++.+...  +|.-..-|-.....=.+.|..+.+.++|++-.                
T Consensus        45 f~~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv----------------  106 (577)
T KOG1258|consen   45 FDAWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGV----------------  106 (577)
T ss_pred             ccchHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHH----------------
Confidence            334555555444444556667777777754  23333355555555566777777777777632                


Q ss_pred             HHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-CCC-cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039177          160 MINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-GFC-FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGI  237 (453)
Q Consensus       160 m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  237 (453)
                         .|++-+...|...+..++.... +.+.....|+..... |.. .+...|-..|.--..++++.....++++..+.  
T Consensus       107 ---~aip~SvdlW~~Y~~f~~n~~~-d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei--  180 (577)
T KOG1258|consen  107 ---QAIPLSVDLWLSYLAFLKNNNG-DPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI--  180 (577)
T ss_pred             ---HhhhhHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh--
Confidence               2455666677777776655333 336677777777655 422 23456888888888888999999999988864  


Q ss_pred             CCCHHHHHHHHHHHHh---c------CCHHHHHHHHHHHHHC-C---CCCChhhHHHHHH--------------------
Q 039177          238 KPDIVCYTMVLNGVIV---Q------EDYVKAEELFDELLVL-G---LVPDVYTYNVYIN--------------------  284 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~---~------g~~~~a~~~~~~m~~~-g---~~~~~~~~~~li~--------------------  284 (453)
                        ....|+....-|.+   .      ...+++.++-....+. .   ..+....+..-+.                    
T Consensus       181 --P~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~~~~~~l~~~~  258 (577)
T KOG1258|consen  181 --PLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLTEEKTILKRIV  258 (577)
T ss_pred             --hhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhhHHHHHHHHHH
Confidence              22223332222221   1      1223333222222210 0   0001111111110                    


Q ss_pred             -----HHHhcCCHHHHHHHHHHHHHC---CCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHH
Q 039177          285 -----GLCKQNNVEAGIKMIACMEEL---GSK----PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIM  352 (453)
Q Consensus       285 -----~~~~~~~~~~a~~~~~~m~~~---~~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  352 (453)
                           +|-......+....|+.-++.   .++    ++..+|..-+.--.+.|+.+.+.-+|+...-.- ..-...|-..
T Consensus       259 ~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~c-A~Y~efWiky  337 (577)
T KOG1258|consen  259 SIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPC-ALYDEFWIKY  337 (577)
T ss_pred             HHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHH-hhhHHHHHHH
Confidence                 111111112222222222221   112    234578888888888888888888888776541 1123344445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          353 IDGLASKGDIIEACGLLEEALNKGLC--TQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       353 i~~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      +.-....|+.+-|..++....+--.+  |....+.+  ...-..|+++.|..+++...+.
T Consensus       338 ~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a--~f~e~~~n~~~A~~~lq~i~~e  395 (577)
T KOG1258|consen  338 ARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEA--RFEESNGNFDDAKVILQRIESE  395 (577)
T ss_pred             HHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHH--HHHHhhccHHHHHHHHHHHHhh
Confidence            55555558888888777766554322  22222222  2233457888898888888765

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.18  E-value=5.5  Score=21.59  Aligned_cols=29  Identities=21%  Similarity=0.242  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ..|..+...|...|++++|++.|++..+.
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            35666777788888888888888877654

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=80.56  E-value=41  Score=29.79  Aligned_cols=115  Identities=10%  Similarity=0.141  Sum_probs=54.7

Q ss_pred             ChhHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhc-C-CHHHHHHHHHHHHH-CCCCCChhhHHHHHHHHHhcCCHHHHH
Q 039177          221 KVFDALGILNQMKS-DGIKPDIVCYTMVLNGVIVQ-E-DYVKAEELFDELLV-LGLVPDVYTYNVYINGLCKQNNVEAGI  296 (453)
Q Consensus       221 ~~~~a~~~~~~m~~-~~~~~~~~~~~~ll~~~~~~-g-~~~~a~~~~~~m~~-~g~~~~~~~~~~li~~~~~~~~~~~a~  296 (453)
                      .+.+|+++|+.... ..+--|..+...+++..... + ....-.++.+.+.. .|..++..+...+|..+++.+++.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            34556666653221 12333555555566555441 1 12222223333322 123455555555566666666666655


Q ss_pred             HHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          297 KMIACMEEL-GSKPDVITYNTLLQALCKVRELNRLRELVK  335 (453)
Q Consensus       297 ~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  335 (453)
                      ++++..... +..-|...|..+|..-...|+..-...+..
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            555554443 333455556666666666665544444433

---

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	453
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 76.8 bits (187), Expect = 5e-15
 Identities = 24/215 (11%), Positives = 60/215 (27%), Gaps = 3/215 (1%)

Query: 224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI 283
            A  + +  +     P       +L     +      +    +     L         + 
Sbjct: 75  MAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFF 134

Query: 284 NGLCKQNNVEAGIKMIACMEELGSK---PDVITYNTLLQALCKVRELNRLRELVKEMKWK 340
                 + +     ++        K     +  YN ++    +      L  ++  +K  
Sbjct: 135 KCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA 194

Query: 341 GIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKA 400
           G+  +L +Y+  +  +  +           E +++      ++F   +     R  V KA
Sbjct: 195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA 254

Query: 401 LELLKQMADKDVSPGARVWEALLLSSVSKLDFVNT 435
           +  +K            V  + LL  V   D   +
Sbjct: 255 VHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVS 289

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 66.0 bits (159), Expect = 1e-11
 Identities = 29/235 (12%), Positives = 71/235 (30%), Gaps = 2/235 (0%)

Query: 195 QEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQ 254
            + +  G    ++ +        +       L + +  +       +  Y  V+ G   Q
Sbjct: 119 SQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQ 178

Query: 255 EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIAC-MEELGSKPDVIT 313
             + +   +   +   GL PD+ +Y   +  + +Q+     I+     M + G K   + 
Sbjct: 179 GAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALF 238

Query: 314 YNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL 373
              LL    +   L  + ++         +      S ++  + +K   +    L     
Sbjct: 239 TAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLK 298

Query: 374 NKGLCTQSSMFDETICGLCQRGL-VRKALELLKQMADKDVSPGARVWEALLLSSV 427
                 +  +  E    +C   +          + A K +      WE  L  ++
Sbjct: 299 TLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRAL 353

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 61.0 bits (146), Expect = 5e-10
 Identities = 30/243 (12%), Positives = 78/243 (32%), Gaps = 8/243 (3%)

Query: 189 ELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVL 248
            LL      ++      +  Y  V+    ++    + + +L  +K  G+ PD++ Y   L
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Query: 249 NGVIVQEDYVKA-EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS 307
             +  Q+      E   +++   GL        V ++   +   ++A  K+         
Sbjct: 208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQ 267

Query: 308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACG 367
            P  +  + LL+ +          +L   +K    +   Q   + +        + +   
Sbjct: 268 LPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQ-LHMELASRVCVVSVEKPTL 326

Query: 368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSV 427
             +E  +     ++           ++ L R   E   ++  +       ++  L L   
Sbjct: 327 PSKEVKHARKTLKTLRDQ------WEKALCRALRETKNRLEREVYEGRFSLYPFLCLLDE 380

Query: 428 SKL 430
            ++
Sbjct: 381 REV 383

>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 = 69.5 bits (169), Expect = 1e-12
 Identities = 74/477 (15%), Positives = 148/477 (31%), Gaps = 101/477 (21%)

Query: 22  LSPYKAKWHQTLDQQQAKQNVKQSLTTPPTKQQQQIPKQPHILSSLLHSFSIYNCEPPPE 81
           LS ++  +    D +  +   K  L+    ++   I      +S  L  F     +    
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSK---EEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78

Query: 82  AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAH-RFQDSVNLFY 140
              FV + L  N +F     ++  I+  +    P  +     + Y +   R  +   +F 
Sbjct: 79  VQKFVEEVLRINYKF-----LMSPIKTEQR--QPSMMT----RMYIEQRDRLYNDNQVF- 126

Query: 141 KIPKFRINRVGFAIEILNCMIND------------GFCVDGKTCSLILSSVCEQRDLSSD 188
              K+ ++R+   +++   ++              G    GKT  + L  VC        
Sbjct: 127 --AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGS---GKTW-VAL-DVC--LSYKVQ 177

Query: 189 ELLGF-VQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV 247
             + F +  +  L  C        +++ L+ +    D         S  IK  I      
Sbjct: 178 CKMDFKIFWL-NLKNCNSPETVLEMLQKLLYQ---IDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV--YINGLCK-------QNNVEAGIKM 298
           L  ++  + Y         LLVL    +V         N  CK       +   +     
Sbjct: 234 LRRLLKSKPYENC------LLVLL---NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAA 284

Query: 299 IACMEELGSKPDVITYNTLLQAL-----CKVRELNR------------LRELVKEMK--W 339
                 L      +T + +   L     C+ ++L R            + E +++    W
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW 344

Query: 340 KGIVLNLQTYSIMIDGLASKGDIIEAC-GLLEEALNKGLCTQSSMFDE-------TICGL 391
                N +  +   D L +   IIE+   +LE A  + +  + S+F          +  +
Sbjct: 345 D----NWKHVN--CDKLTT---IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 392 ---CQRGLVRKALELL--KQMADKDVSPGARVWEALLLSSVSKLDFVNTSFIRLVDQ 443
                +  V   +  L    + +K          ++ L    KL+        +VD 
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDH 452

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	453
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.88
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.87
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.81
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.8
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.79
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.79
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.75
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.73
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.72
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.71
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.67
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.65
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.64
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.62
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.6
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.6
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.59
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.58
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.57
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.56
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.56
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.56
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.56
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.55
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.53
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.49
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.48
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.48
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.47
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.45
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.44
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.41
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.39
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.35
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.34
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.33
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.32
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.3
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.29
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.28
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.28
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.28
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.26
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.25
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.25
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.23
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.2
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.18
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.18
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.14
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.08
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.08
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.07
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.01
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.01
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.0
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.96
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.95
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.94
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.93
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.92
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.91
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.9
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.89
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.88
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.88
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.87
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.86
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.86
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.86
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.84
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.84
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.8
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.79
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.72
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.72
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.71
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.7
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.68
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.68
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.67
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.65
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.64
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.61
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.61
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.58
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.58
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.58
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.56
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.55
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.55
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.54
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.53
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.51
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.51
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.5
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.5
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.49
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.48
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.47
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.45
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.45
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.45
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.43
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.43
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.42
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.41
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.38
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.36
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.35
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.33
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.32
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.31
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.29
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.29
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.29
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.28
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.25
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.24
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.24
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.23
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.23
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.22
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.22
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.21
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.2
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.18
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.14
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.12
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.1
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.08
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.08
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.06
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.02
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.02
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.0
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.96
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.95
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.94
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.93
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.91
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.9
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.89
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.87
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.86
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.85
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.84
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.76
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.75
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.72
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.69
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.67
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.67
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.64
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.59
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.48
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.48
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.42
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.39
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.37
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.36
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.25
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.2
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.14
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.77
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.62
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.59
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.57
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.48
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.47
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.43
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.42
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.41
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.39
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.27
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.22
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.13
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.1
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.02
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.81
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.47
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.04
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.95
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	94.94
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.86
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	94.84
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.79
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.49
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.48
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.47
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.49
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	92.19
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.99
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.82
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.74
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.59
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.52
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.13
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.62
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.18
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	88.16
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.84
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.4
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.37
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.17
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	84.4
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.13
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	81.73

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=9.3e-34  Score=270.63  Aligned_cols=205  Identities=15%  Similarity=0.194  Sum_probs=113.1

Q ss_pred             HHHHHHHHHHHcCCCcCh-hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------HH
Q 039177          189 ELLGFVQEMKKLGFCFGM-VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQED---------YV  258 (453)
Q Consensus       189 ~a~~~~~~~~~~g~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~---------~~  258 (453)
                      .+..+.+.+.+.+..... ..++.+|++|++.|++++|+++|++|.+.|++||..||++||.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            344455555555544333 24666666677777777777777777666666677777776666665543         44


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          259 KAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMK  338 (453)
Q Consensus       259 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  338 (453)
                      .|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          339 WKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ  393 (453)
Q Consensus       339 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  393 (453)
                      +.|+.||..||++||.+|++.|++++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            5555555555555555555555555555555555555555555555555555544

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=100.00  E-value=1.1e-33  Score=270.05  Aligned_cols=208  Identities=14%  Similarity=0.203  Sum_probs=181.1

Q ss_pred             HHHHHHHHHHHHCCCccCh-HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC--------
Q 039177          151 GFAIEILNCMINDGFCVDG-KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK--------  221 (453)
Q Consensus       151 ~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~--------  221 (453)
                      ..+..+.+.+.+.+..+.+ ..++.+|.+|++.|++  ++|.++|++|.+.|+.||..+||+||.+|++.+.        
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~--~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~   84 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDV--LEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNP   84 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCH--HHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCH--HHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcc
Confidence            3456667778877776554 4688999999999999  9999999999999999999999999999998765        


Q ss_pred             -hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 039177          222 -VFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA  300 (453)
Q Consensus       222 -~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  300 (453)
                       ++.|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|+
T Consensus        85 ~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           85 GLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence             6789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 039177          301 CMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG  360 (453)
Q Consensus       301 ~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  360 (453)
                      +|.+.|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|+..+
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            999999999999999999999999999999999999999999999999999999998743

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.6e-31  Score=261.53  Aligned_cols=357  Identities=10%  Similarity=0.020  Sum_probs=254.3

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhh-cccC---------
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYK-IPKF---------  145 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-~~~~---------  145 (453)
                      ..|+..++..++.++.+.|++++|..+|+.+...   +++..+++.++.+|.++|++++|+++|++ ++..         
T Consensus       113 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  189 (597)
T 2xpi_A          113 ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY---NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKL  189 (597)
T ss_dssp             HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG---GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC---------
T ss_pred             hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc---ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccc
Confidence            4456666666666666666666666666665432   45566666666666666666666666662 3322         


Q ss_pred             ---------C-------------CCcHHHHHHHHHHHHHCC---------------------------------------
Q 039177          146 ---------R-------------INRVGFAIEILNCMINDG---------------------------------------  164 (453)
Q Consensus       146 ---------~-------------~~~~~~a~~~~~~m~~~~---------------------------------------  164 (453)
                               +             .|++++|+++|++|...+                                       
T Consensus       190 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (597)
T 2xpi_A          190 LMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAA  269 (597)
T ss_dssp             -CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHH
T ss_pred             cccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHH
Confidence                     0             455566666665554422                                       


Q ss_pred             -------------------------------CccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHH
Q 039177          165 -------------------------------FCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVI  213 (453)
Q Consensus       165 -------------------------------~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  213 (453)
                                                     .+++..+++.++.++.+.|+.  ++|.++|+++.+.+ +.+..+|+.++
T Consensus       270 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~-~~~~~~~~~l~  346 (597)
T 2xpi_A          270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRF--IDVLAITTKILEID-PYNLDVYPLHL  346 (597)
T ss_dssp             HHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-TTCCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCH--HHHHHHHHHHHHcC-cccHHHHHHHH
Confidence                                           135666777777777777777  77777777777665 34667777777


Q ss_pred             HHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 039177          214 RSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE  293 (453)
Q Consensus       214 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  293 (453)
                      .+|.+.|++++|.++++++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|+++
T Consensus       347 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  424 (597)
T 2xpi_A          347 ASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHD  424 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            88888888888888887777543 3367788888888888888888888888887643 245778888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          294 AGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       294 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      +|.++|+++.+.+. .+..+|+.++.+|.+.|++++|.++|+.+.+.... +..+|+.++..|.+.|++++|.++|+++.
T Consensus       425 ~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  502 (597)
T 2xpi_A          425 QAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNAL  502 (597)
T ss_dssp             HHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            88888888887542 36778888888888888888888888888876544 77888888888888888888888888887


Q ss_pred             HC----CCCCC--hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhchhcchh--hHHHHHHHHHHh
Q 039177          374 NK----GLCTQ--SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSSVSKLD--FVNTSFIRLVDQ  443 (453)
Q Consensus       374 ~~----~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~~~~~~--~~~~~~~~~~~~  443 (453)
                      +.    +..|+  ..+|..++.+|.+.|++++|.++|+++.+.+ ..+..+|..+..+|...++  .+...+.+.++.
T Consensus       503 ~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          503 LLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            65    55666  5678888888888888888888888887543 3367777777777754444  444445555554

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.3e-30  Score=253.35  Aligned_cols=356  Identities=10%  Similarity=-0.019  Sum_probs=283.3

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC-----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR-----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-----------  146 (453)
                      ++...|+.++..+.+.|++++|..+|+.+...   .|+..++..++.+|.+.|++++|+.+|+++....           
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  158 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI---TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAF  158 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh---CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHH
Confidence            57788999999999999999999999999865   5688899999999999999999999999984332           


Q ss_pred             ----CCcHHHHHHHHHHHHHC---------------CCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC-----
Q 039177          147 ----INRVGFAIEILNCMIND---------------GFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF-----  202 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~---------------~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~-----  202 (453)
                          .|++++|+++|+++...               +..++..+|+.++.+|.+.|+.  ++|.++|+++.+.+.     
T Consensus       159 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~p~~~~~  236 (597)
T 2xpi_A          159 CLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF--DRAKECYKEALMVDAKCYEA  236 (597)
T ss_dssp             HHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhCchhhHH
Confidence                79999999999853221               2344678999999999999999  999999999876541     


Q ss_pred             -----------------------------------------------------------------CcChhhHHHHHHHHH
Q 039177          203 -----------------------------------------------------------------CFGMVDYTNVIRSLV  217 (453)
Q Consensus       203 -----------------------------------------------------------------~~~~~~~~~li~~~~  217 (453)
                                                                                       +++..+|+.++.+|.
T Consensus       237 ~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          237 FDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHH
Confidence                                                                             145566777777777


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIK  297 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~  297 (453)
                      +.|++++|+++|+++.+.+.. +..+|..++.+|.+.|++++|..+++++.+.. +.+..+++.++.+|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            777777777777777765433 66677777777777777777777777776543 3567788888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          298 MIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL  377 (453)
Q Consensus       298 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  377 (453)
                      +|+++.+... .+..+|+.++.+|.+.|++++|.++|+++.+.+.. +..+|..++.+|.+.|++++|.++|+++.+.. 
T Consensus       395 ~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  471 (597)
T 2xpi_A          395 YFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG-THLPYLFLGMQHMQLGNILLANEYLQSSYALF-  471 (597)
T ss_dssp             HHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT-CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            8888877432 35778888888888899999999999888877544 77888888888989999999999998888764 


Q ss_pred             CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC----CCCCC--HHHHHHHHhchhcchh--hHHHHHHHHHHh
Q 039177          378 CTQSSMFDETICGLCQRGLVRKALELLKQMADK----DVSPG--ARVWEALLLSSVSKLD--FVNTSFIRLVDQ  443 (453)
Q Consensus       378 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~--~~~~~~ll~a~~~~~~--~~~~~~~~~~~~  443 (453)
                      ..+..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..+..+|...++  .+...+.++++.
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  545 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLL  545 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            346778888899999999999999999988765    67787  6788888888755444  444446665554

>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=99.94  E-value=5.2e-23  Score=192.47  Aligned_cols=316  Identities=10%  Similarity=0.017  Sum_probs=187.5

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      +...+..+...+...|+++.|...++...+..  +.+...|..+...|.+.|++++|+..|+++...             
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-------------   96 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRL-------------   96 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-------------
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-------------
Confidence            34556667777788888888888888887763  667788888888888888888888888774432             


Q ss_pred             HHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039177          159 CMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGI  237 (453)
Q Consensus       159 ~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  237 (453)
                             .| +..+|..+..++...|+.  ++|.+.|+.+.+.. +.+...+..+...+...|++++|+++|+++.+..+
T Consensus        97 -------~p~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  166 (388)
T 1w3b_A           97 -------KPDFIDGYINLAAALVAAGDM--EGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQP  166 (388)
T ss_dssp             -------CTTCHHHHHHHHHHHHHHSCS--SHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCT
T ss_pred             -------CcchHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence                   23 233455566666666666  56666666555543 22333455555555566666666666666655432


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 039177          238 KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTL  317 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  317 (453)
                      . +..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...|++..+... .+..++..+
T Consensus       167 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l  243 (388)
T 1w3b_A          167 N-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNL  243 (388)
T ss_dssp             T-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CCHHHHHHH
Confidence            2 45555566666666666666666666665543 22344555555556666666666666655555321 134555556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      ...|.+.|++++|...|+.+.+.+.. +..+|..+...|.+.|++++|...|+++.+.. +.+..++..+...+.+.|++
T Consensus       244 ~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  321 (388)
T 1w3b_A          244 ACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCH
Confidence            66666666666666666666555433 44555666666666666666666666665543 33445555566666666666


Q ss_pred             HHHHHHHHHHhhCCCCCC-HHHHHHHHhch
Q 039177          398 RKALELLKQMADKDVSPG-ARVWEALLLSS  426 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~-~~~~~~ll~a~  426 (453)
                      ++|...++++.+  +.|+ ..++..+...+
T Consensus       322 ~~A~~~~~~al~--~~p~~~~~~~~l~~~~  349 (388)
T 1w3b_A          322 EEAVRLYRKALE--VFPEFAAAHSNLASVL  349 (388)
T ss_dssp             HHHHHHHHHHTT--SCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh--cCCCcHHHHHHHHHHH
Confidence            666666666553  2332 34444444444

>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=99.94  E-value=3.5e-23  Score=193.63  Aligned_cols=308  Identities=15%  Similarity=0.042  Sum_probs=268.0

Q ss_pred             CCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHH
Q 039177           76 CEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIE  155 (453)
Q Consensus        76 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~  155 (453)
                      .+.+..+|..+...+.+.|++++|...|+.+.+..  +.+...|..+..+|.+.|++++|+..|+++.            
T Consensus        63 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al------------  128 (388)
T 1w3b_A           63 NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSAL------------  128 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHH------------
T ss_pred             CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHH------------
Confidence            45678899999999999999999999999999873  5567789999999999999999999988743            


Q ss_pred             HHHHHHHCCCccC-hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          156 ILNCMINDGFCVD-GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       156 ~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                            ..  .|+ ...+..+...+...|+.  ++|.+.|+++.+.. +.+..+|..+...|.+.|++++|+..|+++.+
T Consensus       129 ------~~--~p~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  197 (388)
T 1w3b_A          129 ------QY--NPDLYCVRSDLGNLLKALGRL--EEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT  197 (388)
T ss_dssp             ------HH--CTTCTHHHHHHHHHHHTTSCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             ------Hh--CCCcHHHHHHHHHHHHHccCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                  21  344 44667788888889999  99999999998875 44678899999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 039177          235 DGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITY  314 (453)
Q Consensus       235 ~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  314 (453)
                      .++. +...|..+...+...|++++|...|++..+.. +.+..++..+..+|.+.|++++|.+.|+.+.+.+. .+..+|
T Consensus       198 ~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~  274 (388)
T 1w3b_A          198 LDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAY  274 (388)
T ss_dssp             HCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHH
T ss_pred             cCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHH
Confidence            7544 67889999999999999999999999998754 23578889999999999999999999999998642 256789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhC
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQR  394 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  394 (453)
                      ..+..+|.+.|++++|...|+.+.+.... +..++..+...+.+.|++++|...++++.+.. +.+..++..+...|.+.
T Consensus       275 ~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  352 (388)
T 1w3b_A          275 CNLANALKEKGSVAEAEDCYNTALRLCPT-HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQ  352 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHc
Confidence            99999999999999999999999987544 88899999999999999999999999998753 44567899999999999


Q ss_pred             CCHHHHHHHHHHHhhCCCCCC
Q 039177          395 GLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       395 g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      |++++|...|+++.+  +.|+
T Consensus       353 g~~~~A~~~~~~a~~--~~p~  371 (388)
T 1w3b_A          353 GKLQEALMHYKEAIR--ISPT  371 (388)
T ss_dssp             TCCHHHHHHHHHHHT--TCTT
T ss_pred             CCHHHHHHHHHHHHh--hCCC
Confidence            999999999999984  5665

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=7.3e-21  Score=181.43  Aligned_cols=314  Identities=9%  Similarity=-0.011  Sum_probs=261.5

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHH
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEIL  157 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~  157 (453)
                      .+...+..+...+.+.|++++|..+|+.+.+..  +.+..++..+..+|...|++++|+..|+++.+             
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~-------------   88 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQ-------------   88 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHh-------------
Confidence            456678889999999999999999999999863  66789999999999999999999999887432             


Q ss_pred             HHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcCh---hhHHHH------------HHHHHhcCCh
Q 039177          158 NCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGM---VDYTNV------------IRSLVKKEKV  222 (453)
Q Consensus       158 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~l------------i~~~~~~g~~  222 (453)
                           .+ +.+..++..+..++...|+.  ++|...|+.+.+.. +.+.   ..+..+            ...+.+.|++
T Consensus        89 -----~~-p~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A           89 -----LK-MDFTAARLQRGHLLLKQGKL--DEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDY  159 (450)
T ss_dssp             -----HC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCH
T ss_pred             -----cC-CCcHHHHHHHHHHHHHcCCH--HHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCH
Confidence                 21 23567889999999999999  99999999998865 2233   555555            4448999999


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ++|+..|+++.+.... +..++..+..+|.+.|++++|..+|+++.+.. +.+..++..+...|...|++++|...|+.+
T Consensus       160 ~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  237 (450)
T 2y4t_A          160 TAAIAFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVREC  237 (450)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999886543 78899999999999999999999999998754 356889999999999999999999999999


Q ss_pred             HHCCCCCC-HHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCcC----HHHHHHHHHHHHhcCCHHHH
Q 039177          303 EELGSKPD-VITYNTL------------LQALCKVRELNRLRELVKEMKWKGIVLN----LQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       303 ~~~~~~p~-~~~~~~l------------i~~~~~~~~~~~a~~~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A  365 (453)
                      .+..  |+ ...+..+            ...|.+.|++++|..+|+.+.+.... +    ...|..+..++.+.|++++|
T Consensus       238 ~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~l~~~~~~~g~~~~A  314 (450)
T 2y4t_A          238 LKLD--QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-IAEYTVRSKERICHCFSKDEKPVEA  314 (450)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHhC--CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHHHHCCCHHHH
Confidence            8753  44 4445444            78999999999999999999986433 2    45788999999999999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       366 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      ...++++.+.. +.+...|..+..+|...|++++|...++++.+  +.|+.......+
T Consensus       315 ~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l  369 (450)
T 2y4t_A          315 IRVCSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGL  369 (450)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHH
Confidence            99999998764 34678899999999999999999999999984  567644443333

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=2e-20  Score=181.45  Aligned_cols=344  Identities=9%  Similarity=-0.041  Sum_probs=262.7

Q ss_pred             hHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhc
Q 039177           63 ILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKI  142 (453)
Q Consensus        63 ~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  142 (453)
                      .+...++.....+  |++..|..+..++.+.|+++.|...++.+.+..  +.+...+..+..+|.+.|++++|+..|+++
T Consensus        24 ~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~   99 (514)
T 2gw1_A           24 DAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRASANEGLGKFADAMFDLSVL   99 (514)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3444455444433  789999999999999999999999999999874  667889999999999999999999999876


Q ss_pred             ccCC----------------------------------------------------------------------------
Q 039177          143 PKFR----------------------------------------------------------------------------  146 (453)
Q Consensus       143 ~~~~----------------------------------------------------------------------------  146 (453)
                      ...+                                                                            
T Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (514)
T 2gw1_A          100 SLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFAN  179 (514)
T ss_dssp             HHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSS
T ss_pred             HhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHH
Confidence            3322                                                                            


Q ss_pred             ----------------------CCcHHHHHHHHHHHHH-----CCC--------ccChHhHHHHHHHHHhcCCCChHHHH
Q 039177          147 ----------------------INRVGFAIEILNCMIN-----DGF--------CVDGKTCSLILSSVCEQRDLSSDELL  191 (453)
Q Consensus       147 ----------------------~~~~~~a~~~~~~m~~-----~~~--------~p~~~~~~~ll~~~~~~~~~~~~~a~  191 (453)
                                            .|++++|+.+|+.+..     ...        +.+..++..+...+...|+.  ++|.
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~A~  257 (514)
T 2gw1_A          180 YDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDP--LGAH  257 (514)
T ss_dssp             CCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCH--HHHH
T ss_pred             hcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCH--HHHH
Confidence                                  4678888888888776     211        22345677777788888888  8888


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          192 GFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG  271 (453)
Q Consensus       192 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  271 (453)
                      ..++.+.+..  |+...+..+...|...|++++|++.++++.+.... +..++..+...+...|++++|...++...+..
T Consensus       258 ~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  334 (514)
T 2gw1_A          258 EDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD  334 (514)
T ss_dssp             HHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            8888887765  33777888888888888888888888888776433 56678888888888888888888888887754


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cC----H
Q 039177          272 LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV-LN----L  346 (453)
Q Consensus       272 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~  346 (453)
                       +.+...+..+...|...|++++|...++.+.+... .+..++..+...|.+.|++++|...++.+.+.... ++    .
T Consensus       335 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  412 (514)
T 2gw1_A          335 -PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFP-EAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGI  412 (514)
T ss_dssp             -SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHST-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCS
T ss_pred             -hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc-cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHH
Confidence             23566777788888888888888888888877532 24567788888888888888888888887765222 11    3


Q ss_pred             HHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 039177          347 QTYSIMIDGLAS---KGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       347 ~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  420 (453)
                      ..+..+...|..   .|++++|...|+++.+.. ..+...+..+...|.+.|++++|...|++..+  +.|+.....
T Consensus       413 ~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~  486 (514)
T 2gw1_A          413 APLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESAD--LARTMEEKL  486 (514)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSHHHHH
T ss_pred             HHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hccccHHHH
Confidence            477888888888   888888888888887764 33556677788888888888888888888874  355544433

>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=99.88  E-value=1.1e-19  Score=173.25  Aligned_cols=310  Identities=9%  Similarity=0.029  Sum_probs=246.8

Q ss_pred             HHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHH
Q 039177          101 SVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVC  180 (453)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  180 (453)
                      ..+..+....  +.+...+..+...|.+.|++++|+.+|+++.                  .. .+.+..++..+..++.
T Consensus        13 ~~~~~~~~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l------------------~~-~p~~~~~~~~l~~~~~   71 (450)
T 2y4t_A           13 LGTENLYFQS--MADVEKHLELGKKLLAAGQLADALSQFHAAV------------------DG-DPDNYIAYYRRATVFL   71 (450)
T ss_dssp             ------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------HH-CTTCHHHHHHHHHHHH
T ss_pred             cccccccccc--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH------------------Hh-CCccHHHHHHHHHHHH
Confidence            3344444332  6678899999999999999999999998743                  21 2346788999999999


Q ss_pred             hcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH---HHHHHHH---------
Q 039177          181 EQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI---VCYTMVL---------  248 (453)
Q Consensus       181 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~ll---------  248 (453)
                      ..|+.  ++|...|+.+.+.+ +.+..++..+...|.+.|++++|.+.|+++.+.... +.   ..+..+.         
T Consensus        72 ~~g~~--~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  147 (450)
T 2y4t_A           72 AMGKS--KAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLR  147 (450)
T ss_dssp             HTTCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCH--HHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHH
Confidence            99999  99999999999876 456788999999999999999999999999986433 33   5555553         


Q ss_pred             ---HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 039177          249 ---NGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR  325 (453)
Q Consensus       249 ---~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  325 (453)
                         ..+...|++++|...|+.+.+.. +.+..++..+..+|.+.|++++|.++|+.+.+.. ..+..++..+...|...|
T Consensus       148 ~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  225 (450)
T 2y4t_A          148 SQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLG  225 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence               44889999999999999998864 3578889999999999999999999999998754 246789999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHH
Q 039177          326 ELNRLRELVKEMKWKGIVLNLQTYSIM------------IDGLASKGDIIEACGLLEEALNKGLCTQ-----SSMFDETI  388 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~~~~p~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~~~-----~~~~~~li  388 (453)
                      ++++|...|+.+.+.... +...+..+            ...|.+.|++++|...|+++.+..  |+     ...|..+.
T Consensus       226 ~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~  302 (450)
T 2y4t_A          226 DHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERIC  302 (450)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHH
Confidence            999999999999987544 55555555            889999999999999999998853  43     34788889


Q ss_pred             HHHHhCCCHHHHHHHHHHHhhCCCCC-CHHHHHHHHhchhcchhh--HHHHHHHHHH
Q 039177          389 CGLCQRGLVRKALELLKQMADKDVSP-GARVWEALLLSSVSKLDF--VNTSFIRLVD  442 (453)
Q Consensus       389 ~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~a~~~~~~~--~~~~~~~~~~  442 (453)
                      ..+.+.|++++|+..++++.+.  .| +...|..+..+|...++.  +...+.+.++
T Consensus       303 ~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  357 (450)
T 2y4t_A          303 HCFSKDEKPVEAIRVCSEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE  357 (450)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9999999999999999998854  44 577888887777555443  4444555544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.87  E-value=1.2e-19  Score=175.92  Aligned_cols=350  Identities=13%  Similarity=0.034  Sum_probs=279.4

Q ss_pred             hhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC--------------
Q 039177           81 EAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR--------------  146 (453)
Q Consensus        81 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------------  146 (453)
                      ..+......+.+.|++++|...|+.+.+.   .|+..++..+..+|.+.|++++|+..|+++.+.+              
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALEL---KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhc---CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHH
Confidence            45667778899999999999999999988   3689999999999999999999999999877644              


Q ss_pred             --CCcHHHHHHHHHHHHHCCCccC--------------------------------------------------------
Q 039177          147 --INRVGFAIEILNCMINDGFCVD--------------------------------------------------------  168 (453)
Q Consensus       147 --~~~~~~a~~~~~~m~~~~~~p~--------------------------------------------------------  168 (453)
                        .|++++|+..|+.+...+- ++                                                        
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence              7999999999999887542 11                                                        


Q ss_pred             -----------------------hHhHHHHHHHHHh---cCCCChHHHHHHHHHHHH-----cCC--------CcChhhH
Q 039177          169 -----------------------GKTCSLILSSVCE---QRDLSSDELLGFVQEMKK-----LGF--------CFGMVDY  209 (453)
Q Consensus       169 -----------------------~~~~~~ll~~~~~---~~~~~~~~a~~~~~~~~~-----~g~--------~~~~~~~  209 (453)
                                             ...+......+..   .|++  ++|...|+++.+     ..-        +.+..++
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESY--DKADESFTKAARLFEEQLDKNNEDEKLKEKLAISL  240 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHH--HHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccH--HHHHHHHHHHHHHhhhhhccCccccccChHHHHHH
Confidence                                   1122222222222   6777  999999999887     311        2345678


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      ..+...+...|++++|...|+++.+....  ..++..+..++...|++++|...++.+.+.. +.+...+..+...|...
T Consensus       241 ~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  317 (514)
T 2gw1_A          241 EHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFIL  317 (514)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHh
Confidence            89999999999999999999999887544  8889999999999999999999999998864 34677888999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          290 NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                      |++++|...|+...+.... +...+..+...|...|++++|..+++.+.+.... +..++..+...|...|++++|...+
T Consensus       318 ~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~  395 (514)
T 2gw1_A          318 QNYDQAGKDFDKAKELDPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQY  395 (514)
T ss_dssp             TCTTHHHHHHHHHHHTCSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhChh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999999986432 5678899999999999999999999999887544 6678999999999999999999999


Q ss_pred             HHHHHCCCC-CC----hhhHHHHHHHHHh---CCCHHHHHHHHHHHhhCCCCC-CHHHHHHHHhchhcch--hhHHHHHH
Q 039177          370 EEALNKGLC-TQ----SSMFDETICGLCQ---RGLVRKALELLKQMADKDVSP-GARVWEALLLSSVSKL--DFVNTSFI  438 (453)
Q Consensus       370 ~~m~~~~~~-~~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~a~~~~~--~~~~~~~~  438 (453)
                      +++.+.... ++    ...+..+...+..   .|++++|...++++.+.  .| +...+..+-..+...+  +.+...+.
T Consensus       396 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~  473 (514)
T 2gw1_A          396 DLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKL--DPRSEQAKIGLAQMKLQQEDIDEAITLFE  473 (514)
T ss_dssp             HHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            998765211 11    2378888999999   99999999999999864  34 4555555655554443  44444455


Q ss_pred             HHHHh
Q 039177          439 RLVDQ  443 (453)
Q Consensus       439 ~~~~~  443 (453)
                      +.++.
T Consensus       474 ~a~~~  478 (514)
T 2gw1_A          474 ESADL  478 (514)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.87  E-value=5.1e-18  Score=156.27  Aligned_cols=309  Identities=9%  Similarity=-0.023  Sum_probs=254.9

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      |+..+..+...+...|++++|...|+.+.+..  +.+..++..+...|...|++++|+..|+++.+              
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--------------   65 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIA--------------   65 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--------------
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--------------
Confidence            35567788889999999999999999999874  56788999999999999999999999887432              


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCC---cChhhHHHH------------HHHHHhcCChh
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFC---FGMVDYTNV------------IRSLVKKEKVF  223 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~---~~~~~~~~l------------i~~~~~~g~~~  223 (453)
                          . .+-+...+..+...+...|+.  ++|...++.+.+.. +   .+...+..+            ...+...|+++
T Consensus        66 ----~-~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  137 (359)
T 3ieg_A           66 ----L-KMDFTAARLQRGHLLLKQGKL--DEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYT  137 (359)
T ss_dssp             ----H-CTTCHHHHHHHHHHHHHHTCH--HHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ----h-CCCcchHHHHHHHHHHHcCCh--HHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHH
Confidence                1 122567888999999999999  99999999998875 2   244445554            58899999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACME  303 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  303 (453)
                      +|++.++++.+.... +...+..+...+...|++++|...++...+.. +.+..++..+...|...|++++|...|+...
T Consensus       138 ~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          138 AAITFLDKILEVCVW-DAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999886543 78889999999999999999999999998864 4577889999999999999999999999998


Q ss_pred             HCCCCCCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH----HHHHHHHHHHHhcCCHHHHHH
Q 039177          304 ELGSKPDVITYN------------TLLQALCKVRELNRLRELVKEMKWKGIVLNL----QTYSIMIDGLASKGDIIEACG  367 (453)
Q Consensus       304 ~~~~~p~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~  367 (453)
                      +.... +...+.            .+...+.+.|++++|...++.+.+.... +.    ..+..+..+|.+.|++++|..
T Consensus       216 ~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~  293 (359)
T 3ieg_A          216 KLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIR  293 (359)
T ss_dssp             HHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHH
Confidence            85422 333333            2366789999999999999999987544 33    235567889999999999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHH
Q 039177          368 LLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       368 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      .+++..+.. +.+...+..+...|...|++++|...|++..+  +.|+...
T Consensus       294 ~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~  341 (359)
T 3ieg_A          294 ICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQ  341 (359)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHH
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChH
Confidence            999998864 34677889999999999999999999999994  5676443

>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=99.84  E-value=1e-17  Score=163.40  Aligned_cols=322  Identities=12%  Similarity=0.002  Sum_probs=248.9

Q ss_pred             CCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------
Q 039177           77 EPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------  146 (453)
Q Consensus        77 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------  146 (453)
                      +.++.+|..+...+.+.|++++|...++.+.+..  +.+...+..+..+|...|++++|+..|+.+....          
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  133 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPM  133 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHH
Confidence            3467889999999999999999999999999874  6678899999999999999999999885432110          


Q ss_pred             --------------------------------------------------------------------------------
Q 039177          147 --------------------------------------------------------------------------------  146 (453)
Q Consensus       147 --------------------------------------------------------------------------------  146 (453)
                                                                                                      
T Consensus       134 ~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  213 (537)
T 3fp2_A          134 LERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLV  213 (537)
T ss_dssp             HHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHH
Confidence                                                                                            


Q ss_pred             -CCcHHHHHHHHHHHHHCCCccC--------hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHH
Q 039177          147 -INRVGFAIEILNCMINDGFCVD--------GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLV  217 (453)
Q Consensus       147 -~~~~~~a~~~~~~m~~~~~~p~--------~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  217 (453)
                       .+++++|+.+++.+...  .|+        ..++..+...+...|+.  ++|...++.+.+..  |+...|..+...|.
T Consensus       214 a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~--~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  287 (537)
T 3fp2_A          214 ANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNL--LDAQVLLQESINLH--PTPNSYIFLALTLA  287 (537)
T ss_dssp             HHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC--CCHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccH--HHHHHHHHHHHhcC--CCchHHHHHHHHHH
Confidence             02567777777777753  333        22466666777788887  88898888888865  55777888888888


Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIK  297 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~  297 (453)
                      ..|++++|++.|+++.+.... +..+|..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|..
T Consensus       288 ~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~  365 (537)
T 3fp2_A          288 DKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEA  365 (537)
T ss_dssp             CSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            899999999999888876543 67788888888889999999999998888754 2346678888888889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CcCHHHHHHHHHHHHhc----------CCH
Q 039177          298 MIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGI-----VLNLQTYSIMIDGLASK----------GDI  362 (453)
Q Consensus       298 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----~p~~~~~~~li~~~~~~----------g~~  362 (453)
                      .++.+.+... .+...+..+...|...|++++|...|+.+.+...     ......+..+...|...          |++
T Consensus       366 ~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  444 (537)
T 3fp2_A          366 FFNETKLKFP-TLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKF  444 (537)
T ss_dssp             HHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHH
T ss_pred             HHHHHHHhCC-CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHH
Confidence            9988887542 2456788888888899999999999888776421     11222344455667777          889


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          363 IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                      ++|...|++..+.. +.+...+..+...|.+.|++++|.+.|++..+.
T Consensus       445 ~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          445 NAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            99999999888764 345667888888899999999999999988853

>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=99.83  E-value=1.1e-17  Score=152.25  Aligned_cols=227  Identities=11%  Similarity=-0.065  Sum_probs=109.6

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039177          175 ILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE-KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV  253 (453)
Q Consensus       175 ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  253 (453)
                      ++..+...|+.  ++|..+++++.+.. +.+...|..+...+...| ++++|++.|++..+.... +...|..+...+..
T Consensus        62 ~~~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~  137 (330)
T 3hym_B           62 HIGTLVELNKA--NELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLEKT-YGPAWIAYGHSFAV  137 (330)
T ss_dssp             HHHHHHHHTCH--HHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTCTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhH--HHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHH
Confidence            33334444444  44444444444332 223344444444555555 455555555555443222 33444455555555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          254 QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLREL  333 (453)
Q Consensus       254 ~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  333 (453)
                      .|++++|...+++..+.. +.+...+..+...|...|++++|...++...+... .+...+..+...|...|++++|...
T Consensus       138 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~  215 (330)
T 3hym_B          138 ESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIAP-EDPFVMHEVGVVAFQNGEWKTAEKW  215 (330)
T ss_dssp             HTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcccHHHHHHH
Confidence            555555555555554432 11233344445555555555555555555554321 2344555555555555555555555


Q ss_pred             HHHHHHCC--------CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHH
Q 039177          334 VKEMKWKG--------IVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLK  405 (453)
Q Consensus       334 ~~~~~~~~--------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  405 (453)
                      ++.+.+..        ...+..++..+...|...|++++|...+++..+.. ..+...+..+...|.+.|++++|...++
T Consensus       216 ~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  294 (330)
T 3hym_B          216 FLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFH  294 (330)
T ss_dssp             HHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHH
Confidence            55554421        01123455555555555566666666555555443 2234445555555555666666666665


Q ss_pred             HHh
Q 039177          406 QMA  408 (453)
Q Consensus       406 ~m~  408 (453)
                      +..
T Consensus       295 ~al  297 (330)
T 3hym_B          295 TAL  297 (330)
T ss_dssp             TTT
T ss_pred             HHH
Confidence            555

>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=99.83  E-value=7.3e-18  Score=164.40  Aligned_cols=352  Identities=12%  Similarity=0.048  Sum_probs=264.9

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC------------
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR------------  146 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------------  146 (453)
                      ....|..+...+.+.|++++|...|+.+.+..  +.+...+..+..+|.+.|++++|+..|+++.+.+            
T Consensus        24 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~  101 (537)
T 3fp2_A           24 YAVQLKNRGNHFFTAKNFNEAIKYYQYAIELD--PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHH
Confidence            34567788899999999999999999999874  6688999999999999999999999999977654            


Q ss_pred             ----CCcHHHHHHHHHHHHHCCC------------------------------------ccChHhHH-------------
Q 039177          147 ----INRVGFAIEILNCMINDGF------------------------------------CVDGKTCS-------------  173 (453)
Q Consensus       147 ----~~~~~~a~~~~~~m~~~~~------------------------------------~p~~~~~~-------------  173 (453)
                          .|++++|+..|+.+....-                                    .|+.....             
T Consensus       102 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  181 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVS  181 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHH
Confidence                6889999988863311110                                    01111000             


Q ss_pred             -------------HHHHHHHhc------------CCCChHHHHHHHHHHHHcCCCcC--------hhhHHHHHHHHHhcC
Q 039177          174 -------------LILSSVCEQ------------RDLSSDELLGFVQEMKKLGFCFG--------MVDYTNVIRSLVKKE  220 (453)
Q Consensus       174 -------------~ll~~~~~~------------~~~~~~~a~~~~~~~~~~g~~~~--------~~~~~~li~~~~~~g  220 (453)
                                   .+..++...            +++  ++|..+++.+.+..  |+        ..++..+...+...|
T Consensus       182 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~--~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~  257 (537)
T 3fp2_A          182 SVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLL--TKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKN  257 (537)
T ss_dssp             TSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHH--HHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHH--HHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcc
Confidence                         011111111            244  77888888887764  33        235777788899999


Q ss_pred             ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 039177          221 KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA  300 (453)
Q Consensus       221 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  300 (453)
                      ++++|+..|++..+..  |+..+|..+...+...|++++|...++...+.. +.+..++..+...|...|++++|...|+
T Consensus       258 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  334 (537)
T 3fp2_A          258 NLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQ  334 (537)
T ss_dssp             CHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence            9999999999999864  457888899999999999999999999998865 3467889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----
Q 039177          301 CMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG----  376 (453)
Q Consensus       301 ~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----  376 (453)
                      ...+... .+...+..+...|...|++++|..+++.+.+.... +...+..+...|...|++++|...|+++.+..    
T Consensus       335 ~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~  412 (537)
T 3fp2_A          335 KAQSLNP-ENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQE  412 (537)
T ss_dssp             HHHHHCT-TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCS
T ss_pred             HHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcch
Confidence            9988642 24678999999999999999999999999988554 67789999999999999999999999987642    


Q ss_pred             -CCCChhhHHHHHHHHHhC----------CCHHHHHHHHHHHhhCCCCC-CHHHHHHHHhchhcc--hhhHHHHHHHHHH
Q 039177          377 -LCTQSSMFDETICGLCQR----------GLVRKALELLKQMADKDVSP-GARVWEALLLSSVSK--LDFVNTSFIRLVD  442 (453)
Q Consensus       377 -~~~~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~a~~~~--~~~~~~~~~~~~~  442 (453)
                       .......+..+...+...          |++++|...|++..+.  .| +...+..+-..+...  .+.+...+.+.++
T Consensus       413 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  490 (537)
T 3fp2_A          413 KIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACEL--DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI  490 (537)
T ss_dssp             SCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence             111222244445677777          9999999999999864  34 455666665555444  4444444555544


Q ss_pred             h
Q 039177          443 Q  443 (453)
Q Consensus       443 ~  443 (453)
                      .
T Consensus       491 ~  491 (537)
T 3fp2_A          491 L  491 (537)
T ss_dssp             H
T ss_pred             h
Confidence            3

>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=99.82  E-value=1.9e-17  Score=150.70  Aligned_cols=296  Identities=9%  Similarity=-0.077  Sum_probs=244.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHH
Q 039177           75 NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAI  154 (453)
Q Consensus        75 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~  154 (453)
                      +.+.++..+..+...+...|++++|..+++.+.+.  .+.+...+..++..+...|++++|..+|+++.           
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~-----------   83 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEK--DPFHASCLPVHIGTLVELNKANELFYLSHKLV-----------   83 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHH-----------
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCChhhHHHHHHHHHHhhhHHHHHHHHHHHH-----------
Confidence            45677788889999999999999999999999986  35566677788899999999999999888743           


Q ss_pred             HHHHHHHHCCCccChHhHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 039177          155 EILNCMINDGFCVDGKTCSLILSSVCEQR-DLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMK  233 (453)
Q Consensus       155 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  233 (453)
                             .. .+.+...+..+...+...| +.  ++|...|+...+.. +.+...|..+...|...|++++|++.|+++.
T Consensus        84 -------~~-~~~~~~~~~~l~~~~~~~~~~~--~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  152 (330)
T 3hym_B           84 -------DL-YPSNPVSWFAVGCYYLMVGHKN--EHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAA  152 (330)
T ss_dssp             -------HH-CTTSTHHHHHHHHHHHHSCSCH--HHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             -------Hh-CcCCHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence                   21 1335678888999999999 77  89999999998875 4467789999999999999999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC-------
Q 039177          234 SDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG-------  306 (453)
Q Consensus       234 ~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-------  306 (453)
                      +.... +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++...+..       
T Consensus       153 ~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~  230 (330)
T 3hym_B          153 QLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEV  230 (330)
T ss_dssp             HHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSC
T ss_pred             Hhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccc
Confidence            86544 56677789999999999999999999998865 3567889999999999999999999999988632       


Q ss_pred             -CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 039177          307 -SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFD  385 (453)
Q Consensus       307 -~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  385 (453)
                       ...+..++..+...|.+.|++++|...++...+.... +...+..+...|.+.|++++|...|++..+.. +.+...+.
T Consensus       231 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~  308 (330)
T 3hym_B          231 TVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVT  308 (330)
T ss_dssp             TTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHH
T ss_pred             cccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHH
Confidence             1234578999999999999999999999999987655 77889999999999999999999999987654 33556677


Q ss_pred             HHHHHH-HhCCCHH
Q 039177          386 ETICGL-CQRGLVR  398 (453)
Q Consensus       386 ~li~~~-~~~g~~~  398 (453)
                      .+..++ ...|+.+
T Consensus       309 ~l~~~~~~~~g~~~  322 (330)
T 3hym_B          309 MLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHTTTTC--
T ss_pred             HHHHHHHHHhCchh
Confidence            777766 4555543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.81  E-value=8.2e-20  Score=179.74  Aligned_cols=114  Identities=11%  Similarity=0.112  Sum_probs=55.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 039177          277 YTYNVYINGLCKQNNVEAGIKMIACMEE---LGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMI  353 (453)
Q Consensus       277 ~~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li  353 (453)
                      .+||++|++||+.|++++|.++|..|.+   .|+.||..|||+||.+||+.|++++|.++|++|.+.|+.||..||++||
T Consensus       128 ~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI  207 (1134)
T 3spa_A          128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL  207 (1134)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHH
Confidence            3444555555555555555544444332   2444455555555555555555555555555555555555555555555


Q ss_pred             HHHHhcCC-HHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          354 DGLASKGD-IIEACGLLEEALNKGLCTQSSMFDETICG  390 (453)
Q Consensus       354 ~~~~~~g~-~~~A~~~~~~m~~~~~~~~~~~~~~li~~  390 (453)
                      .++++.|+ .++|.++|++|.+.|+.||..+|++++.+
T Consensus       208 ~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~  245 (1134)
T 3spa_A          208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE  245 (1134)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCH
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccCh
Confidence            55554444 23444455555544555555554444433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.80  E-value=1.2e-19  Score=178.60  Aligned_cols=119  Identities=14%  Similarity=0.126  Sum_probs=88.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKS---DGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV  281 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~  281 (453)
                      -..+||+||++|++.|++++|.++|++|.+   .|+.||++|||+||.+|++.|++++|.++|++|.+.|+.||..|||+
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            345677777777777777777777766653   46777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 039177          282 YINGLCKQNN-VEAGIKMIACMEELGSKPDVITYNTLLQALCK  323 (453)
Q Consensus       282 li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  323 (453)
                      +|.++|+.|+ .++|.++|++|.+.|+.||..+|+.++..+.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            7777777776 46677777777777777777777777765544

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.79  E-value=2e-17  Score=153.07  Aligned_cols=288  Identities=12%  Similarity=-0.017  Sum_probs=175.8

Q ss_pred             cCCcchHHH-HHHHHHHcCCCCC--CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh
Q 039177           93 NSQFCDISS-VLDHIEKRENFET--PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG  169 (453)
Q Consensus        93 ~~~~~~a~~-~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  169 (453)
                      .|+++.|.. .++.......-.|  +...+..+...|.+.|++++|+..|+++.                  .. .+.+.
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al------------------~~-~p~~~   98 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAV------------------QQ-DPKHM   98 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHH------------------HS-CTTCH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHH------------------Hh-CCCCH
Confidence            355666665 5554433211111  23345566666777777777666666532                  21 12345


Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH---
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM---  246 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---  246 (453)
                      .++..+..++...|+.  ++|...++.+.+.. +.+..++..+...|...|++++|++.|+++.+.... +...+..   
T Consensus        99 ~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~  174 (368)
T 1fch_A           99 EAWQYLGTTQAENEQE--LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEE  174 (368)
T ss_dssp             HHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC----
T ss_pred             HHHHHHHHHHHHCcCH--HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHH
Confidence            5666666777777776  77777777766654 345666777777777777777777777777665432 2222211   


Q ss_pred             ------------HHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 039177          247 ------------VLNGVIVQEDYVKAEELFDELLVLGLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVIT  313 (453)
Q Consensus       247 ------------ll~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  313 (453)
                                  .+..+...|++++|...|+++.+..... +..++..+...|.+.|++++|...|+.+.+.. ..+..+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  253 (368)
T 1fch_A          175 GAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLL  253 (368)
T ss_dssp             -----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHH
Confidence                        1333336777777777777776643211 36667777777777777777777777777643 124567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----------Chhh
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT----------QSSM  383 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~----------~~~~  383 (453)
                      +..+...|.+.|++++|...|+.+.+.... +..++..+..+|.+.|++++|...|+++.+.....          ...+
T Consensus       254 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  332 (368)
T 1fch_A          254 WNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENI  332 (368)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHH
Confidence            777777777777777777777777765433 56677777777777777777777777776542111          1456


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHH
Q 039177          384 FDETICGLCQRGLVRKALELLK  405 (453)
Q Consensus       384 ~~~li~~~~~~g~~~~A~~~~~  405 (453)
                      |..+..+|...|++++|..+++
T Consensus       333 ~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          333 WSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHHhCChHhHHHhHH
Confidence            7777777777777777776655

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.79  E-value=1.1e-15  Score=140.56  Aligned_cols=301  Identities=10%  Similarity=0.025  Sum_probs=236.8

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHH
Q 039177          115 PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFV  194 (453)
Q Consensus       115 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~  194 (453)
                      +...+..+...+...|++++|+..|+++.                  .. .+.+..++..+...+...|+.  ++|...+
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l------------------~~-~p~~~~~~~~~a~~~~~~~~~--~~A~~~~   60 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAV------------------DG-DPDNYIAYYRRATVFLAMGKS--KAALPDL   60 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH------------------HH-CTTCHHHHHHHHHHHHHHTCH--HHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHH------------------hh-CcccHHHHHHHHHHHHHccCH--HHHHHHH
Confidence            45677888899999999999999988743                  21 133567888999999999999  9999999


Q ss_pred             HHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCHHHHHHH------------HHHHHhcCCHHHH
Q 039177          195 QEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK--PDIVCYTMV------------LNGVIVQEDYVKA  260 (453)
Q Consensus       195 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~~~~~l------------l~~~~~~g~~~~a  260 (453)
                      +.+.+.. +.+...|..+...|...|++++|+..|+++.+....  .+...+..+            ...+...|++++|
T Consensus        61 ~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A  139 (359)
T 3ieg_A           61 TKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAA  139 (359)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHH
Confidence            9998875 446788999999999999999999999999986431  144455444            5788899999999


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          261 EELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       261 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ...++++.+.. +.+...+..+...+...|++++|...++.+.+.. ..+..++..+...|...|++++|...++...+.
T Consensus       140 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~  217 (359)
T 3ieg_A          140 ITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL  217 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999998865 3567888999999999999999999999999864 236789999999999999999999999999987


Q ss_pred             CCCcCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh----hhHHHHHHHHHhCCCHHHHHHHH
Q 039177          341 GIVLNLQTYS------------IMIDGLASKGDIIEACGLLEEALNKGLCTQS----SMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       341 ~~~p~~~~~~------------~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                      ... +...+.            .+...+.+.|++++|...++++.+.... +.    ..+..+...+...|++++|...+
T Consensus       218 ~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~~~~  295 (359)
T 3ieg_A          218 DQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAIRIC  295 (359)
T ss_dssp             CTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             Ccc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            544 444433            2366789999999999999999886422 22    23455778899999999999999


Q ss_pred             HHHhhCCCCC-CHHHHHHHHhchhc--chhhHHHHHHHHHHh
Q 039177          405 KQMADKDVSP-GARVWEALLLSSVS--KLDFVNTSFIRLVDQ  443 (453)
Q Consensus       405 ~~m~~~~~~p-~~~~~~~ll~a~~~--~~~~~~~~~~~~~~~  443 (453)
                      ++..+.  .| +..++..+-..+..  ..+.+...+.+.++.
T Consensus       296 ~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          296 SEVLQM--EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999864  45 55666666555543  444444445555543

>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=99.78  E-value=6.2e-17  Score=149.82  Aligned_cols=290  Identities=11%  Similarity=0.001  Sum_probs=220.0

Q ss_pred             HhcCChhHHHH-HHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC
Q 039177          127 ADAHRFQDSVN-LFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG  205 (453)
Q Consensus       127 ~~~g~~~~A~~-~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~  205 (453)
                      .-.|++++|+. .|++.....               ......+...+..+...+...|++  ++|...|+.+.+.. +.+
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~---------------~~~~~~~~~~~~~~~~~~~~~g~~--~~A~~~~~~al~~~-p~~   97 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFE---------------EENPLRDHPQPFEEGLRRLQEGDL--PNAVLLFEAAVQQD-PKH   97 (368)
T ss_dssp             ----------CHHHHCCCCCC---------------SSCTTTTCSSHHHHHHHHHHTTCH--HHHHHHHHHHHHSC-TTC
T ss_pred             HHHHHHHHHHhhhhhHHHhcC---------------CCCcccchHHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC-CCC
Confidence            34467777777 776544310               011111355688889999999999  99999999999875 557


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHH----
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNV----  281 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~----  281 (453)
                      ..+|..+...|.+.|++++|++.|+++.+.... +..++..+..++...|++++|...++.+.+.... +...+..    
T Consensus        98 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~  175 (368)
T 1fch_A           98 MEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEG  175 (368)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC-----
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHH
Confidence            788999999999999999999999999887544 7889999999999999999999999999886522 2222221    


Q ss_pred             -----------HHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 039177          282 -----------YINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTY  349 (453)
Q Consensus       282 -----------li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  349 (453)
                                 .+..+...|++++|...|+.+.+..... +..++..+...|.+.|++++|...++.+.+.... +..++
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~  254 (368)
T 1fch_A          176 AGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLW  254 (368)
T ss_dssp             ----------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             hhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHH
Confidence                       2344448999999999999998864221 4789999999999999999999999999987544 67899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCC---CC-------CHHHH
Q 039177          350 SIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDV---SP-------GARVW  419 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p-------~~~~~  419 (453)
                      ..+...|...|++++|...|+++.+.. +.+...+..+...|.+.|++++|...|+++.+..-   .|       ...+|
T Consensus       255 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~  333 (368)
T 1fch_A          255 NKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIW  333 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHH
Confidence            999999999999999999999998864 34567889999999999999999999999875311   11       15677


Q ss_pred             HHHHhchh--cchhhHHHHHH
Q 039177          420 EALLLSSV--SKLDFVNTSFI  438 (453)
Q Consensus       420 ~~ll~a~~--~~~~~~~~~~~  438 (453)
                      ..+..++.  ++.+.+.....
T Consensus       334 ~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          334 STLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHHHHHHHHhCChHhHHHhHH
Confidence            77766654  45555555543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=1.7e-16  Score=146.81  Aligned_cols=235  Identities=9%  Similarity=-0.098  Sum_probs=128.8

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      +...+..+...+.+.|++++|...|+.+.+..  +.+..++..+...|.+.|++++|+..|+++.+              
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--------------  127 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLE--------------  127 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--------------
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--------------
Confidence            34456667777777888888888888887763  55677777888888888888777777766322              


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhh----------HHHHHHHHHhcCChhHHHHH
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVD----------YTNVIRSLVKKEKVFDALGI  228 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~----------~~~li~~~~~~g~~~~a~~~  228 (453)
                          . .+.+..++..+...+...|+.  ++|...++++.+.. +.+...          +..+...|.+.|++++|++.
T Consensus       128 ----~-~p~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  199 (365)
T 4eqf_A          128 ----L-QPNNLKALMALAVSYTNTSHQ--QDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKEL  199 (365)
T ss_dssp             ----H-CTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHH
T ss_pred             ----c-CCCCHHHHHHHHHHHHccccH--HHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHH
Confidence                1 122455667777777777776  77777777766543 111111          22234555555555555555


Q ss_pred             HHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          229 LNQMKSDGIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGS  307 (453)
Q Consensus       229 ~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  307 (453)
                      |+++.+.... .+..++..+...+...|++++|+..|++..+.. +.+..+|..+..+|.+.|++++|...|+...+...
T Consensus       200 ~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  278 (365)
T 4eqf_A          200 YLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQP  278 (365)
T ss_dssp             HHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            5555544221 134455555555555555555555555554432 22344455555555555555555555555544321


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          308 KPDVITYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       308 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                       .+..++..+..+|.+.|++++|...|+.+.+
T Consensus       279 -~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  309 (365)
T 4eqf_A          279 -GFIRSRYNLGISCINLGAYREAVSNFLTALS  309 (365)
T ss_dssp             -TCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             -CchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             1244455555555555555555555554443

>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-15  Score=136.38  Aligned_cols=251  Identities=8%  Similarity=0.032  Sum_probs=168.4

Q ss_pred             HHHHhcCCcchHHHHHHHHHHcCCCCCCH--HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCC
Q 039177           88 KTLAENSQFCDISSVLDHIEKRENFETPE--FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGF  165 (453)
Q Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  165 (453)
                      +.....|++..|+...+.....   .|+.  .....+.++|...|+++.|+..++.                      .-
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~---~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----------------------~~   61 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS---SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----------------------SS   61 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC---SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----------------------TS
T ss_pred             HHHHHHHHHHHHHHHHHhcccC---CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----------------------cC
Confidence            4455667787777777655432   3332  3445567788888888887765543                      12


Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC-CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF-CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCY  244 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~  244 (453)
                      +|+..++..+...+...++.  +++.+.++++...+. +-+...+..+...|.+.|++++|++.+++      +.+...+
T Consensus        62 ~~~~~a~~~la~~~~~~~~~--~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~  133 (291)
T 3mkr_A           62 APELQAVRMFAEYLASHSRR--DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECM  133 (291)
T ss_dssp             CHHHHHHHHHHHHHHCSTTH--HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHH
T ss_pred             ChhHHHHHHHHHHHcCCCcH--HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHH
Confidence            45556677777777777776  778888887776653 33455566667777888888888887776      3466777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          245 TMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTY---NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       245 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      ..+...+.+.|++++|.+.|+.+.+..  |+....   ...+..+...|++++|..+|+++.+.. +.+...++.+..++
T Consensus       134 ~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~  210 (291)
T 3mkr_A          134 AMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACH  210 (291)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            777777888888888888888877653  443211   122233344577788888887777653 34666777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHC
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE-ACGLLEEALNK  375 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~  375 (453)
                      .+.|++++|...|+++.+.... +..++..++..+...|+.++ +.++++++.+.
T Consensus       211 ~~~g~~~eA~~~l~~al~~~p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          211 MAQGRWEAAEGVLQEALDKDSG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            7888888888888877776554 66677777777777777765 46777777664

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=1.2e-16  Score=147.85  Aligned_cols=234  Identities=11%  Similarity=-0.072  Sum_probs=195.5

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      +...+..+...+.+.|++  ++|...|+.+.+.. +.+..+|..+...|.+.|++++|++.|+++.+.... +..+|..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~--~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDL--PVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPN-NLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHH
Confidence            445688888999999999  99999999998875 557888999999999999999999999999886543 68899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHH
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPD-----------VYTYNVYINGLCKQNNVEAGIKMIACMEELGSK-PDVITYN  315 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~  315 (453)
                      ..+|...|++++|...|+++.+..  |+           ...+..+...+...|++++|...|+++.+.... ++..++.
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  217 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQT  217 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHH
Confidence            999999999999999999998743  22           222334578899999999999999999986422 1578999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          316 TLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       316 ~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      .+...|.+.|++++|...|+.+.+.... +..+|..+..+|...|++++|...|+++.+.. +.+...+..+...|.+.|
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            9999999999999999999999987554 78899999999999999999999999998864 345778899999999999


Q ss_pred             CHHHHHHHHHHHhh
Q 039177          396 LVRKALELLKQMAD  409 (453)
Q Consensus       396 ~~~~A~~~~~~m~~  409 (453)
                      ++++|...|+++.+
T Consensus       296 ~~~~A~~~~~~al~  309 (365)
T 4eqf_A          296 AYREAVSNFLTALS  309 (365)
T ss_dssp             CCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999999885

>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=99.75  E-value=4.8e-16  Score=141.14  Aligned_cols=265  Identities=11%  Similarity=-0.069  Sum_probs=209.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHH
Q 039177          117 FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQE  196 (453)
Q Consensus       117 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~  196 (453)
                      ..+..+...+...|++++|+.+|+++.                  .. .+.+..++..+..++...|+.  ++|...+++
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~------------------~~-~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~   80 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVC------------------QA-APEREEAWRSLGLTQAENEKD--GLAIIALNH   80 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHH------------------HH-CTTCHHHHHHHHHHHHHTTCH--HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHH------------------Hh-CCCCHHHHHHHHHHHHHcCCH--HHHHHHHHH
Confidence            345667778888888888888887733                  22 123566788888899999998  999999999


Q ss_pred             HHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-HHHhcCCHHHHH
Q 039177          197 MKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV--------------LN-GVIVQEDYVKAE  261 (453)
Q Consensus       197 ~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l--------------l~-~~~~~g~~~~a~  261 (453)
                      +.+.. +.+..++..+...|...|++++|++.++++.+.... +...+..+              .. .+...|++++|.
T Consensus        81 a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~  158 (327)
T 3cv0_A           81 ARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECR  158 (327)
T ss_dssp             HHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHH
T ss_pred             HHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHH
Confidence            88875 456778999999999999999999999999876433 33333333              22 377788999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          262 ELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKG  341 (453)
Q Consensus       262 ~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  341 (453)
                      ..++++.+.. +.+...+..+...|...|++++|.+.++.+.+... .+..++..+...|...|++++|...++.+.+..
T Consensus       159 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          159 TLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            9999988765 34678888899999999999999999999887542 357788999999999999999999999988875


Q ss_pred             CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----------ChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          342 IVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT-----------QSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       342 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      .. +..++..+...|...|++++|.+.++++.+.....           +...+..+...+.+.|++++|..++++.
T Consensus       237 ~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          237 PG-YVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             CC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            44 67889999999999999999999999887754221           4667888899999999999999887754

>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=99.75  E-value=6.5e-16  Score=140.25  Aligned_cols=267  Identities=7%  Similarity=-0.088  Sum_probs=220.1

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      +...+-.....+...|++++|..+|+.+.+..  +.+...+..+...|...|++++|...|+++.+              
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--------------   83 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARM--------------   83 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--------------
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--------------
Confidence            44556777888999999999999999999874  56788999999999999999999999887432              


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHH--------------HH-HHHhcCChh
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNV--------------IR-SLVKKEKVF  223 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l--------------i~-~~~~~g~~~  223 (453)
                          . .+.+..++..+...+...|+.  ++|.+.++.+.+.. +.+...+..+              .. .+...|+++
T Consensus        84 ----~-~~~~~~~~~~la~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (327)
T 3cv0_A           84 ----L-DPKDIAVHAALAVSHTNEHNA--NAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYR  155 (327)
T ss_dssp             ----H-CTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHH
T ss_pred             ----c-CcCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHH
Confidence                1 133567888899999999999  99999999998865 2233334433              23 377889999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACME  303 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  303 (453)
                      +|.+.++++.+.... +..++..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|+.+.
T Consensus       156 ~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  233 (327)
T 3cv0_A          156 ECRTLLHAALEMNPN-DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRAL  233 (327)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999886544 78899999999999999999999999998864 3467889999999999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          304 ELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-----------NLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       304 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      +... .+..++..+...|.+.|++++|...++.+.+.....           +..+|..+..+|.+.|+.++|..++++.
T Consensus       234 ~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          234 DINP-GYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HcCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            8542 357789999999999999999999999998764332           4678999999999999999999998754

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.73  E-value=5e-13  Score=128.61  Aligned_cols=325  Identities=12%  Similarity=0.023  Sum_probs=244.0

Q ss_pred             CCCcchHHHHHHHhhhcCCCCChhhHHHHHHHHHh----cCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHh----c
Q 039177           58 PKQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAE----NSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYAD----A  129 (453)
Q Consensus        58 ~~~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~  129 (453)
                      +.+.......++.....|   ++..+..+...+..    .++++.|...|+...+. |   +...+..|...|..    .
T Consensus        56 ~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~  128 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-G---LPQAQQNLGVMYHEGNGVK  128 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSC
T ss_pred             CcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCC
Confidence            445555555555444433   56677777777777    88888888888888765 2   55667777788877    7


Q ss_pred             CChhHHHHHHhhcccCC------------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHh----cCCCCh
Q 039177          130 HRFQDSVNLFYKIPKFR------------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCE----QRDLSS  187 (453)
Q Consensus       130 g~~~~A~~~~~~~~~~~------------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~  187 (453)
                      +++++|+..|++..+.+                  .++.++|++.|+...+.|   +...+..+...+..    .++.  
T Consensus       129 ~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~--  203 (490)
T 2xm6_A          129 VDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERND--  203 (490)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH--
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCH--
Confidence            78888888888765544                  457888888888887764   56667777777766    5666  


Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV----QEDYVK  259 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~  259 (453)
                      ++|.+.|+...+.|   +...+..+...|..    .+++++|.++|++..+.|   +...+..+...|..    .++.++
T Consensus       204 ~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~  277 (490)
T 2xm6_A          204 AISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLK  277 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHH
Confidence            88888888887765   45677777777776    788888888888887764   45566667777777    788888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHH
Q 039177          260 AEELFDELLVLGLVPDVYTYNVYINGLCKQ-----NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR---ELNRLR  331 (453)
Q Consensus       260 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~  331 (453)
                      |...|+...+.|   +...+..+...|...     ++.++|...|+...+.|   +...+..+...|.+.|   ++++|.
T Consensus       278 A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~  351 (490)
T 2xm6_A          278 ALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAV  351 (490)
T ss_dssp             HHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHH
T ss_pred             HHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHH
Confidence            888888887754   455666777777776     78889998888888764   4566777777777756   788888


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHH
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALEL  403 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~  403 (453)
                      ..|+...+.|   +...+..|...|..    .+++++|...|++..+.+   +...+..|...|.+    .+++++|..+
T Consensus       352 ~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~  425 (490)
T 2xm6_A          352 EWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAW  425 (490)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence            8888888774   67788888888888    788999999999888876   45667777778877    7889999999


Q ss_pred             HHHHhhCCC
Q 039177          404 LKQMADKDV  412 (453)
Q Consensus       404 ~~~m~~~~~  412 (453)
                      |++..+.+.
T Consensus       426 ~~~A~~~~~  434 (490)
T 2xm6_A          426 FDTASTNDM  434 (490)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHCCC
Confidence            999887653

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.72  E-value=1.9e-15  Score=134.73  Aligned_cols=259  Identities=13%  Similarity=0.069  Sum_probs=204.9

Q ss_pred             HHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh--HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Q 039177          124 KTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG--KTCSLILSSVCEQRDLSSDELLGFVQEMKKLG  201 (453)
Q Consensus       124 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g  201 (453)
                      +-....|+++.|+..++.+..                    ..|+.  .....+.++|...|+.  +.|...++.    .
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~--------------------~~p~~~~e~~~~l~r~yi~~g~~--~~al~~~~~----~   60 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKP--------------------SSPERDVERDVFLYRAYLAQRKY--GVVLDEIKP----S   60 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCC--------------------CSHHHHHHHHHHHHHHHHHTTCH--HHHHHHSCT----T
T ss_pred             HHHHHHHHHHHHHHHHHhccc--------------------CCchhhHHHHHHHHHHHHHCCCH--HHHHHHhcc----c
Confidence            444556777777776655332                    23443  3556678899999998  888875533    2


Q ss_pred             CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 039177          202 FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKP-DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYN  280 (453)
Q Consensus       202 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~  280 (453)
                      -+|+..++..+...+...++.++|++.++++...+..| +...+..+...+...|++++|++.+++      ..+...+.
T Consensus        61 ~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~  134 (291)
T 3mkr_A           61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMA  134 (291)
T ss_dssp             SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHH
T ss_pred             CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHH
Confidence            35677889999999999999999999999998876545 556667777899999999999999987      46788999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEELGSKPDVITY---NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                      .+...|.+.|++++|.+.|+.+.+..  |+....   ..++..+...|++++|..+|+++.+.... +...++.+..+|.
T Consensus       135 ~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~-~~~~~~~la~~~~  211 (291)
T 3mkr_A          135 MTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSP-TLLLLNGQAACHM  211 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            99999999999999999999999864  554321   23344555669999999999999998544 8889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHH-HHHHHHHHhhCCCCCCHHHHH
Q 039177          358 SKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK-ALELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~~~p~~~~~~  420 (453)
                      +.|++++|...|++..+.. +-+..++..++..+...|+.++ +.++++++.  .+.|+.....
T Consensus       212 ~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~--~~~P~~~~~~  272 (291)
T 3mkr_A          212 AQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLK--DAHRSHPFIK  272 (291)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH--HHCTTCHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH--HhCCCChHHH
Confidence            9999999999999998875 4467788889999999999876 578999988  4467655443

>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=99.72  E-value=9e-17  Score=146.86  Aligned_cols=239  Identities=14%  Similarity=0.158  Sum_probs=62.2

Q ss_pred             hcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHh
Q 039177           92 ENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKT  171 (453)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  171 (453)
                      +.|++++|.+.++++.     .|  .+|..|..++.+.|++++|++.|.+                        .+|..+
T Consensus        15 ~~~~ld~A~~fae~~~-----~~--~vWs~La~A~l~~g~~~eAIdsfik------------------------a~D~~~   63 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN-----EP--AVWSQLAKAQLQKGMVKEAIDSYIK------------------------ADDPSS   63 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC-----Ch--HHHHHHHHHHHHcCCHHHHHHHHHc------------------------CCCHHH
Confidence            3455666666666652     11  2666666666666666666666644                        134445


Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 039177          172 CSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGV  251 (453)
Q Consensus       172 ~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  251 (453)
                      |..++.++...|++  +++...++...+.  .++..+.+.++.+|.+.|+++++.++++       .|+..+|..+...|
T Consensus        64 y~~V~~~ae~~g~~--EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~  132 (449)
T 1b89_A           64 YMEVVQAANTSGNW--EELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRC  132 (449)
T ss_dssp             -------------------------------------------------CHHHHTTTTT-------CC------------
T ss_pred             HHHHHHHHHhCCCH--HHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHH
Confidence            55555555555555  5555544444332  2334445555555555555555554442       23444555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 039177          252 IVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLR  331 (453)
Q Consensus       252 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~  331 (453)
                      ...|.+++|...|..+         ..|..++.++.+.|++++|.+.++.+      .++.+|..++.+|...|+++.|.
T Consensus       133 ~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~  197 (449)
T 1b89_A          133 YDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ  197 (449)
T ss_dssp             ----CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHH
Confidence            5555555555555543         34555555555555555555555554      14455555555555555555553


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ  393 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  393 (453)
                      .....+.     .++.-...++..|.+.|++++|..+++...... .-...+|+.|...|++
T Consensus       198 ~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~k  253 (449)
T 1b89_A          198 MCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  253 (449)
T ss_dssp             HTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHT
T ss_pred             HHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHh
Confidence            3332211     122223345555555555555555555554333 3334444444444443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.71  E-value=1.5e-12  Score=125.32  Aligned_cols=337  Identities=10%  Similarity=-0.016  Sum_probs=272.5

Q ss_pred             CChhhHHHHHHHHHh----cCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHhhcccCC---
Q 039177           78 PPPEAYHFVIKTLAE----NSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYAD----AHRFQDSVNLFYKIPKFR---  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~---  146 (453)
                      -++..+..+...+..    .++++.|...|+...+. |   +...+..|...|..    .+++++|...|++..+.+   
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~  112 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ-G---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQ  112 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHH
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHH
Confidence            467777888888888    89999999999999876 3   56688889999998    899999999999876554   


Q ss_pred             ---------------CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHh----cCCCChHHHHHHHHHHHHcCCCcChh
Q 039177          147 ---------------INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCE----QRDLSSDELLGFVQEMKKLGFCFGMV  207 (453)
Q Consensus       147 ---------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~~~a~~~~~~~~~~g~~~~~~  207 (453)
                                     .+++++|+..|+.....|   +...+..+...|..    .++.  ++|.+.|+...+.|   +..
T Consensus       113 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~--~~A~~~~~~a~~~~---~~~  184 (490)
T 2xm6_A          113 AQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDY--VMAREWYSKAAEQG---NVW  184 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH--HHHHHHHHHHHHTT---CHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCH--HHHHHHHHHHHHCC---CHH
Confidence                           468999999999998876   55667777777776    5666  99999999998875   678


Q ss_pred             hHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhH
Q 039177          208 DYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV----QEDYVKAEELFDELLVLGLVPDVYTY  279 (453)
Q Consensus       208 ~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~  279 (453)
                      .+..|...|..    .+++++|++.|++..+.|   +..++..+...|..    .+++++|..+|+...+.|   +...+
T Consensus       185 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  258 (490)
T 2xm6_A          185 SCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQ  258 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHH
T ss_pred             HHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            88899999998    899999999999998865   56778888888886    789999999999998864   45667


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCcCHHHHH
Q 039177          280 NVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV-----RELNRLRELVKEMKWKGIVLNLQTYS  350 (453)
Q Consensus       280 ~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~  350 (453)
                      ..+...|..    .++.++|...|+...+.|   +...+..+...|...     +++++|...|+...+.+   +...+.
T Consensus       259 ~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~  332 (490)
T 2xm6_A          259 FRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQA  332 (490)
T ss_dssp             HHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHH
Confidence            777777877    899999999999998764   566778888888887     89999999999999875   566788


Q ss_pred             HHHHHHHhcC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          351 IMIDGLASKG---DIIEACGLLEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       351 ~li~~~~~~g---~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      .+...|...|   +.++|.+.|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..|-
T Consensus       333 ~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg  406 (490)
T 2xm6_A          333 NLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLG  406 (490)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             HHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHH
Confidence            8888888767   7899999999998875   56778888888888    899999999999998876   344444443


Q ss_pred             hchh------cchhhHHHHHHHHHHhh
Q 039177          424 LSSV------SKLDFVNTSFIRLVDQI  444 (453)
Q Consensus       424 ~a~~------~~~~~~~~~~~~~~~~~  444 (453)
                      ..+.      +..+.+...+.+..+..
T Consensus       407 ~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          407 EIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            3332      34445555555555544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.69  E-value=2.7e-13  Score=131.89  Aligned_cols=218  Identities=11%  Similarity=0.032  Sum_probs=153.0

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIV-------QEDYV-------KAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------~g~~~-------~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      .+..+|++.....+ -+...|..+...+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~p-~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVLG-HHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            45556666665422 256677777777665       68876       8899998887632234578888889999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH-HHhcCCHHHHH
Q 039177          290 NNVEAGIKMIACMEELGSKPD-V-ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG-LASKGDIIEAC  366 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~-~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~-~~~~g~~~~A~  366 (453)
                      |++++|..+|+.+.+.  .|+ . ..|..++..+.+.|++++|..+|+...+.... +...|...... +...|+.++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            9999999999999884  354 2 47888888888899999999999998876332 33333322222 34689999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCC-CCCC--HHHHHHHHhchh--cchhhHHHHHHHHH
Q 039177          367 GLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKD-VSPG--ARVWEALLLSSV--SKLDFVNTSFIRLV  441 (453)
Q Consensus       367 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~--~~~~~~ll~a~~--~~~~~~~~~~~~~~  441 (453)
                      .+|+...+.. +.+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+....  +..+.+.....+..
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999888763 3356778888888889999999999999988753 3343  345655554433  33444555556666


Q ss_pred             Hhhhc
Q 039177          442 DQILN  446 (453)
Q Consensus       442 ~~~~~  446 (453)
                      +..+.
T Consensus       491 ~~~p~  495 (530)
T 2ooe_A          491 TAFRE  495 (530)
T ss_dssp             HHTHH
T ss_pred             HHCch
Confidence            55553

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.67  E-value=2.1e-14  Score=125.45  Aligned_cols=240  Identities=17%  Similarity=0.084  Sum_probs=199.3

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CC----HH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK--PD----IV  242 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~----~~  242 (453)
                      ...+..+...+...|++  ++|...|+...+..  .+...|..+...|...|++++|++.+++..+....  ++    ..
T Consensus         5 a~~~~~~g~~~~~~~~~--~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   80 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQF--DEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISK   80 (258)
T ss_dssp             HHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhccH--HHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHH
Confidence            34677788889999999  99999999999887  77889999999999999999999999998874322  12    57


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      +|..+...+...|++++|...|++..+..  |+.       ..+.+.|++++|...++.+..... .+...+..+...+.
T Consensus        81 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~  150 (258)
T 3uq3_A           81 SFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVNP-EKAEEARLEGKEYF  150 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcCc-chHHHHHHHHHHHH
Confidence            88899999999999999999999998853  442       456778889999999999988531 24567888999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHH
Q 039177          323 KVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALE  402 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  402 (453)
                      ..|++++|...++.+.+.... +..++..+..+|...|++++|...|++..+.. +.+...+..+...|.+.|++++|..
T Consensus       151 ~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          151 TKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            999999999999999987655 78899999999999999999999999998875 4457788889999999999999999


Q ss_pred             HHHHHhhCC----CCCCHHHHHHHHh
Q 039177          403 LLKQMADKD----VSPGARVWEALLL  424 (453)
Q Consensus       403 ~~~~m~~~~----~~p~~~~~~~ll~  424 (453)
                      .+++..+..    ..|+.......+.
T Consensus       229 ~~~~a~~~~~~~~~~p~~~~~~~~l~  254 (258)
T 3uq3_A          229 TLDAARTKDAEVNNGSSAREIDQLYY  254 (258)
T ss_dssp             HHHHHHHHHHHHHTTTTHHHHHHHHH
T ss_pred             HHHHHHHhChhhcCCCchHHHHHHHH
Confidence            999987532    2266555444443

>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=99.67  E-value=1e-15  Score=139.89  Aligned_cols=267  Identities=8%  Similarity=0.022  Sum_probs=133.5

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHH
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEIL  157 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~  157 (453)
                      +++.+|..+..++.+.|++++|.+.|.+.       +|...|..++..+...|++++|+..+....+             
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark-------------   89 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARK-------------   89 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-------------
Confidence            45679999999999999999999999642       4666889999999999999999987765332             


Q ss_pred             HHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC
Q 039177          158 NCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGI  237 (453)
Q Consensus       158 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  237 (453)
                             ..+++.+.+.++.+|.+.|++  .++.++++       .|+..+|+.+...|...|.+++|..+|..+     
T Consensus        90 -------~~~~~~i~~~Li~~Y~Klg~l--~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           90 -------KARESYVETELIFALAKTNRL--AELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             --------------------------CH--HHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             -------hCccchhHHHHHHHHHHhCCH--HHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence                   135677888999999999998  78777663       367789999999999999999999999977     


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 039177          238 KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTL  317 (453)
Q Consensus       238 ~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  317 (453)
                          ..|..+..++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+.     .++.-...+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHH
Confidence                36899999999999999999999988      378999999999999999999966554422     344445678


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCC------ChhhHHHHHH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK--GDIIEACGLLEEALNKGLCT------QSSMFDETIC  389 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~~------~~~~~~~li~  389 (453)
                      +..|.+.|.+++|..+++...... .-....|+-|...|++-  +++.+.+++|..-  -++.+      +...|..++-
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~  290 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVF  290 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHH
Confidence            899999999999999999988776 33677888888888874  3455555555311  12222      4567888888


Q ss_pred             HHHhCCCHHHHHHH
Q 039177          390 GLCQRGLVRKALEL  403 (453)
Q Consensus       390 ~~~~~g~~~~A~~~  403 (453)
                      .|.+-++++.|...
T Consensus       291 ly~~~~e~d~A~~t  304 (449)
T 1b89_A          291 LYDKYEEYDNAIIT  304 (449)
T ss_dssp             HHHHTTCHHHHHHH
T ss_pred             HHHhhchHHHHHHH
Confidence            99999999988763

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=1.8e-14  Score=122.69  Aligned_cols=200  Identities=12%  Similarity=-0.031  Sum_probs=144.2

Q ss_pred             CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          203 CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVY  282 (453)
Q Consensus       203 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l  282 (453)
                      +++...+..+...+.+.|++++|+..|++..+..+. +...+..+..++.+.|++++|+..+++.++.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            456667778888888888888888888888776544 67777788888888888888888888887754 2356677777


Q ss_pred             HHHHHhc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHH
Q 039177          283 INGLCKQ-----------NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSI  351 (453)
Q Consensus       283 i~~~~~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  351 (453)
                      ..++...           |++++|...|+...+... -+...+..+..+|...|++++|+..|+...+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7778888           888888888888887542 246678888888888888999988888888877  47888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          352 MIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      +..+|...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            8888888899999988888888764 3456677778888888888888888887653

>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=99.66  E-value=7.2e-14  Score=121.81  Aligned_cols=212  Identities=11%  Similarity=-0.017  Sum_probs=167.9

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      ...|..+...|...|++++|++.|+++.+.... +..++..+...+...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPS-SADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            566788888888889999999998888776433 67788888888888999999999998887754 2466778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      |...|++++|.+.++.+.+.+..| +...+..+...|.+.|++++|...++.+.+.... +...+..+...|...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHH
Confidence            889999999999998888733345 3457788888889999999999999988887544 67788888899999999999


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          365 ACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       365 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      |...++++.+.. ..+...+..+...+...|++++|.++++++.+.  .|+...+..++
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l  249 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHHHHH
Confidence            999999887754 345667778888888999999999999998753  56555444443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=5.9e-13  Score=127.44  Aligned_cols=318  Identities=10%  Similarity=-0.073  Sum_probs=169.4

Q ss_pred             CCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHc-------CCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCC
Q 039177           75 NCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKR-------ENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRI  147 (453)
Q Consensus        75 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~  147 (453)
                      +.......|+.+...+...|++++|++.|++..+.       ...+....+|+.+..+|...|++++|...|++..    
T Consensus        46 ~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~----  121 (472)
T 4g1t_A           46 NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVK----  121 (472)
T ss_dssp             C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHH----
T ss_pred             CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHH----
Confidence            34445667899999999999999999999887542       1123456789999999999999999999988743    


Q ss_pred             CcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHH---HHhcCChhH
Q 039177          148 NRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRS---LVKKEKVFD  224 (453)
Q Consensus       148 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~---~~~~g~~~~  224 (453)
                             ++..........-...++.....++...+.-..++|...|++..+.. +-+...+..+..+   +...++.++
T Consensus       122 -------~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~  193 (472)
T 4g1t_A          122 -------HVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQN  193 (472)
T ss_dssp             -------HHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCC
T ss_pred             -------HHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHH
Confidence                   22222111100112234444444444433322256666666665543 2223333333333   233455566


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 039177          225 ALGILNQMKSDGIKPDIVCYTMVLNGVIV----QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA  300 (453)
Q Consensus       225 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  300 (453)
                      |++.+++..+..+. +..++..+...+..    .|++++|.+++++..... +.+..++..+...|...|++++|...++
T Consensus       194 al~~~~~al~l~p~-~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~  271 (472)
T 4g1t_A          194 AIDPLRQAIRLNPD-NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLK  271 (472)
T ss_dssp             THHHHHHHHHHCSS-CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhhcCCc-chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHH
Confidence            66666665554322 34444444433333    245556666666655543 2344555666666666666666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc-------------------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          301 CMEELGSKPDVITYNTLLQALCKV-------------------RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       301 ~m~~~~~~p~~~~~~~li~~~~~~-------------------~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      ...+... -+..++..+...|...                   +.++.|...+....+.... +..++..+...|...|+
T Consensus       272 ~al~~~p-~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          272 KALEYIP-NNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHST-TCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTC
T ss_pred             HHHHhCC-ChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhcc
Confidence            6665321 1333444444433221                   2234555555555554332 33455566666666666


Q ss_pred             HHHHHHHHHHHHHCCCCCChh--hHHHHHH-HHHhCCCHHHHHHHHHHHh
Q 039177          362 IIEACGLLEEALNKGLCTQSS--MFDETIC-GLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       362 ~~~A~~~~~~m~~~~~~~~~~--~~~~li~-~~~~~g~~~~A~~~~~~m~  408 (453)
                      +++|...|++..+....+...  .+..+.. .+.+.|++++|+..|++..
T Consensus       350 ~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal  399 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGV  399 (472)
T ss_dssp             HHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            666666666666544322211  1111111 2235566666666666654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.65  E-value=1.1e-13  Score=118.04  Aligned_cols=214  Identities=12%  Similarity=-0.021  Sum_probs=165.9

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      +...|..+...+...|++++|++.|+++.+.... +...+..+...+...|++++|...+++..+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPK-NELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            4566778888888888888888888888775433 57778888888888888888888888887754 345677788888


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          285 GLCKQ-NNVEAGIKMIACMEELGSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       285 ~~~~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      .|... |++++|...++.+.+.+..|+ ...+..+...|...|++++|...++.+.+.... +...+..+...|...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCH
Confidence            88888 899999999888887333343 467788888888999999999999888876544 677888888889999999


Q ss_pred             HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          363 IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      ++|...++++.+.....+...+..+...+...|+.++|..+++.+.+  ..|+......++
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l  222 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA--NFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hCCCCHHHHHHh
Confidence            99999998887764214566677777788888999999988888874  356655555444

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.64  E-value=3.5e-14  Score=120.84  Aligned_cols=201  Identities=9%  Similarity=-0.079  Sum_probs=164.5

Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYT  245 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  245 (453)
                      +++...+..+...+...|+.  ++|...|+...+.. +.+...+..+...+.+.|++++|+..|++..+..+. +...+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~--~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~   77 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRY--DAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYM   77 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCH--HHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            45777888899999999999  99999999998875 557788999999999999999999999999987544 778899


Q ss_pred             HHHHHHHhc-----------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 039177          246 MVLNGVIVQ-----------EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITY  314 (453)
Q Consensus       246 ~ll~~~~~~-----------g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  314 (453)
                      .+..++...           |++++|+..|++.++.. +.+...+..+..++...|++++|...|++..+..  .+...+
T Consensus        78 ~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~  154 (217)
T 2pl2_A           78 VLSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHH
Confidence            999999999           99999999999998864 2457788889999999999999999999999877  688899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      ..+..+|...|++++|...|+...+..+. +...+..+...+...|++++|+..|++...
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            99999999999999999999999988655 788899999999999999999999987643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.63  E-value=1.1e-11  Score=120.45  Aligned_cols=341  Identities=11%  Similarity=0.038  Sum_probs=232.7

Q ss_pred             chHHHHHHHhhhcCCCCChhhHHHHHHHH-HhcCCcchHHH----HHHHHHHcCCCC-CCHHHHHHHHHHHHh-------
Q 039177           62 HILSSLLHSFSIYNCEPPPEAYHFVIKTL-AENSQFCDISS----VLDHIEKRENFE-TPEFIFIDLIKTYAD-------  128 (453)
Q Consensus        62 ~~~~~ll~~~~~~~~~p~~~~~~~ll~~~-~~~~~~~~a~~----~~~~~~~~~~~~-~~~~~~~~li~~~~~-------  128 (453)
                      +.+..+++.+...  .|+...|...+... ...|+++.|.+    +|+.....-|.. .+..+|...+....+       
T Consensus        63 ~~a~~~~~ral~~--~p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~  140 (530)
T 2ooe_A           63 DKVEKLFQRCLMK--VLHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSY  140 (530)
T ss_dssp             HHHHHHHHHHTTT--CCCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSST
T ss_pred             HHHHHHHHHHHhc--CCChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccH
Confidence            3344444444332  35666666665433 34566766654    666665543433 356677777776654       


Q ss_pred             --cCChhHHHHHHhhcccCCCCc------------------------------HHHHHHHHHHHH------HCC---Ccc
Q 039177          129 --AHRFQDSVNLFYKIPKFRINR------------------------------VGFAIEILNCMI------NDG---FCV  167 (453)
Q Consensus       129 --~g~~~~A~~~~~~~~~~~~~~------------------------------~~~a~~~~~~m~------~~~---~~p  167 (453)
                        .|+++.|+.+|++..+.....                              +..|..++..+.      ...   ++|
T Consensus       141 ~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p  220 (530)
T 2ooe_A          141 AENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPP  220 (530)
T ss_dssp             THHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCC
T ss_pred             HHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCC
Confidence              677888888888766532211                              222333332211      111   233


Q ss_pred             C--------hHhHHHHHHHHHhc----CCC--ChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHh-------cCChh---
Q 039177          168 D--------GKTCSLILSSVCEQ----RDL--SSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVK-------KEKVF---  223 (453)
Q Consensus       168 ~--------~~~~~~ll~~~~~~----~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-------~g~~~---  223 (453)
                      +        ...|...+......    ++.  ....+..+|++..... +.+...|..++..+.+       .|+++   
T Consensus       221 ~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~  299 (530)
T 2ooe_A          221 QNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAK  299 (530)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhh
Confidence            3        13444444332221    121  0136677888877763 4567888888888876       79987   


Q ss_pred             ----HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhcCCHHHHHH
Q 039177          224 ----DALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD--VYTYNVYINGLCKQNNVEAGIK  297 (453)
Q Consensus       224 ----~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~--~~~~~~li~~~~~~~~~~~a~~  297 (453)
                          +|..+|++..+.-.+-+...|..++..+.+.|++++|..+|+++++.  .|+  ...|..++..+.+.|++++|.+
T Consensus       300 ~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~  377 (530)
T 2ooe_A          300 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRM  377 (530)
T ss_dssp             HHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHH
Confidence                89999999986322336889999999999999999999999999985  354  2578889998999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          298 MIACMEELGSKPDVITYNTLLQA-LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       298 ~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      +|+...+... .+...|...... +...|+.++|..+|+...+.... +...|..++..+.+.|+.++|..+|++....+
T Consensus       378 ~~~~Al~~~~-~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          378 IFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHHHHTCTT-CCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHhccC-CchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            9999988532 123333332222 34689999999999999887543 68899999999999999999999999998874


Q ss_pred             C-CCC--hhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          377 L-CTQ--SSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       377 ~-~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      . .|.  ...|...+......|+.+.+..++.++.+
T Consensus       456 ~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          456 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             CSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 222  33787888888899999999999999875

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.62  E-value=2.2e-13  Score=118.93  Aligned_cols=226  Identities=9%  Similarity=0.007  Sum_probs=191.2

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHH
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQ  195 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~  195 (453)
                      ...+..+...+...|++++|+..|++                  .....  .+..++..+..++...|+.  ++|...++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~------------------a~~~~--~~~~~~~~~~~~~~~~~~~--~~A~~~~~   62 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNK------------------AWELH--KDITYLNNRAAAEYEKGEY--ETAISTLN   62 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH------------------HHHHS--CCTHHHHHHHHHHHHTTCH--HHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHH------------------HHHhh--ccHHHHHHHHHHHHHcccH--HHHHHHHH
Confidence            45788888999999999999998887                  33333  6778899999999999999  99999999


Q ss_pred             HHHHcCC--CcC----hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          196 EMKKLGF--CFG----MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       196 ~~~~~g~--~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ...+...  .++    ..+|..+...|.+.|++++|++.|++..+..  |+.       ..+...|++++|...++.+..
T Consensus        63 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~  133 (258)
T 3uq3_A           63 DAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAY  133 (258)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHH
Confidence            9887541  112    5789999999999999999999999998853  342       356677899999999999988


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHH
Q 039177          270 LGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTY  349 (453)
Q Consensus       270 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  349 (453)
                      .. +.+...+..+...+...|++++|...|+...+... .+..++..+...|.+.|++++|...++...+.... +...|
T Consensus       134 ~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~  210 (258)
T 3uq3_A          134 VN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAP-EDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAY  210 (258)
T ss_dssp             CC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHH
T ss_pred             cC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHH-HHHHH
Confidence            54 23566788899999999999999999999988643 36788999999999999999999999999987654 68899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          350 SIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       350 ~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ..+..+|.+.|++++|...+++..+.
T Consensus       211 ~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          211 IRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999999999998765

>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=99.60  E-value=3.9e-12  Score=112.27  Aligned_cols=224  Identities=9%  Similarity=-0.062  Sum_probs=195.9

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVC  243 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~  243 (453)
                      +..++..+...+...++.  ++|.+.|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~--~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDF--TQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             ChHHHHHHHHHHHhCCCH--HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            556677788888889988  99999999998843   56788889999999    999999999999999875   7788


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 039177          244 YTMVLNGVIV----QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYN  315 (453)
Q Consensus       244 ~~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~  315 (453)
                      +..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|+...+.+   +...+.
T Consensus        77 ~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           77 CHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHH
Confidence            8889999999    999999999999999865   67888889999999    999999999999999865   667788


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHH
Q 039177          316 TLLQALCK----VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKGLCTQSSMFDET  387 (453)
Q Consensus       316 ~li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  387 (453)
                      .+...|..    .+++++|...|+...+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  224 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNL  224 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHH
Confidence            88888888    999999999999998875   56788889999999    999999999999998875   25667778


Q ss_pred             HHHHHh----CCCHHHHHHHHHHHhhCC
Q 039177          388 ICGLCQ----RGLVRKALELLKQMADKD  411 (453)
Q Consensus       388 i~~~~~----~g~~~~A~~~~~~m~~~~  411 (453)
                      ...|.+    .+++++|.++|++..+.|
T Consensus       225 ~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          225 GAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            888888    999999999999988654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.60  E-value=5.3e-13  Score=117.66  Aligned_cols=246  Identities=9%  Similarity=-0.092  Sum_probs=194.0

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC--HHHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPD--IVCYTM  246 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~  246 (453)
                      ...+......+...|++  ++|...|++..+.. +.+...+..+...|...|++++|++.+++..+....++  ..+|..
T Consensus         3 ~~~~~~~a~~~~~~~~~--~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~   79 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNY--AEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEY   79 (272)
T ss_dssp             --CHHHHHHHHHTTTCH--HHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCH--HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHH
Confidence            34456667778899998  99999999998875 34566899999999999999999999999988432222  334888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE  326 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  326 (453)
                      +...+...|++++|+..|+...+.. +.+..++..+...|...|++++|...|+...+.. ..+...+..+...+...++
T Consensus        80 lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           80 YGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998864 3456788999999999999999999999998863 2356677777734444569


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCCC------hhhHHHHHHHHHhCCC
Q 039177          327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD---IIEACGLLEEALNKG-LCTQ------SSMFDETICGLCQRGL  396 (453)
Q Consensus       327 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~-~~~~------~~~~~~li~~~~~~g~  396 (453)
                      +++|...|+.+.+.... +...+..+..++...|+   .++|...+++..+.. -.|+      ...|..+...|...|+
T Consensus       158 ~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            99999999999987554 57788888888888888   888999998887652 1233      2467778889999999


Q ss_pred             HHHHHHHHHHHhhCCCCCCHHHHHHH
Q 039177          397 VRKALELLKQMADKDVSPGARVWEAL  422 (453)
Q Consensus       397 ~~~A~~~~~~m~~~~~~p~~~~~~~l  422 (453)
                      +++|.+.|++..+  +.|+...-...
T Consensus       237 ~~~A~~~~~~al~--~~p~~~~a~~~  260 (272)
T 3u4t_A          237 KVKADAAWKNILA--LDPTNKKAIDG  260 (272)
T ss_dssp             HHHHHHHHHHHHH--HCTTCHHHHHH
T ss_pred             HHHHHHHHHHHHh--cCccHHHHHHH
Confidence            9999999999985  45654444333

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.60  E-value=1.2e-13  Score=119.58  Aligned_cols=200  Identities=14%  Similarity=0.044  Sum_probs=135.4

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      ....|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...+++..+.. +.+...+..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKE-DAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            4455667777777888888888888887765433 66777777778888888888888888777653 235667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      .|...|++++|.+.++.+.+... .+...+..+...|.+.|++++|...++.+.+.... +...+..+...|...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNEN-DTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHcCCHHH
Confidence            78888888888888888776542 35667777788888888888888888887776443 66777888888888888888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          365 ACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       365 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      |...|+++.+.. ..+..++..+...|...|++++|...++++.+
T Consensus       178 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  221 (243)
T 2q7f_A          178 ALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAID  221 (243)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHc
Confidence            888888877654 34566777778888888888888888888774

>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=99.59  E-value=1.2e-11  Score=126.26  Aligned_cols=296  Identities=13%  Similarity=0.157  Sum_probs=158.9

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC----------
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKREN-FETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR----------  146 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----------  146 (453)
                      -+|.-....+++|...|.+.+|+++++.+..... +..+...-+.++.+..+. +..+..+..++.....          
T Consensus       983 ~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d~~eIA~Iai~ 1061 (1630)
T 1xi4_A          983 QDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYDAPDIANIAIS 1061 (1630)
T ss_pred             cCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhccHHHHHHHHHh
Confidence            4555567778888899999999999999885421 234555666666665555 3344444333332221          


Q ss_pred             CCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHH
Q 039177          147 INRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  226 (453)
                      .+.+++|..+|++..     -.....+.++.   ..+++  ++|.++.++.      -+..+|..+..++.+.|++++|+
T Consensus      1062 lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nl--drAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNL--DRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             CCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhH--HHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            455666666655531     01111122221   33444  5555554432      12445555556666666666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      +.|.+.      -|...|..++.+|.+.|++++|.+.+....+..  ++....+.++.+|++.+++++....    .+  
T Consensus      1126 dsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~f----I~-- 1191 (1630)
T 1xi4_A         1126 DSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEF----IN-- 1191 (1630)
T ss_pred             HHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHH----Hh--
Confidence            555443      145555555555666666666665555544432  2222223355555555555532222    11  


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----------
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK-----------  375 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----------  375 (453)
                       .++...|..+...|...|++++|..+|...         ..|..+..+|.+.|++++|.+.+++....           
T Consensus      1192 -~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1192 -GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACV 1261 (1630)
T ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence             133344444555555555555555555542         24555555555555555555554433111           


Q ss_pred             -------------CCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          376 -------------GLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       376 -------------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                                   ++..+...+..++..|.+.|.+++|+.+++...  |+.|..
T Consensus      1262 e~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL--~LeraH 1313 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAAL--GLERAH 1313 (1630)
T ss_pred             hhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh--ccChhH
Confidence                         123345567788889999999999999998877  444443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.59  E-value=1.4e-12  Score=113.48  Aligned_cols=202  Identities=9%  Similarity=-0.103  Sum_probs=175.3

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVL  248 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll  248 (453)
                      ...+..+...+...|++  ++|...++++.+.. +.+...+..+...|...|++++|.+.|+++.+.... +...+..+.
T Consensus        37 ~~~~~~~a~~~~~~~~~--~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la  112 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNT--EQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSR-NARVLNNYG  112 (252)
T ss_dssp             HHHHHHHHHHHHHTTCT--GGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCh--HHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-cHHHHHHHH
Confidence            45677888889999999  99999999988875 456788999999999999999999999999886543 778899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          249 NGVIVQEDYVKAEELFDELLVLGLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVREL  327 (453)
Q Consensus       249 ~~~~~~g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  327 (453)
                      ..+...|++++|.++++++.+.+..| +...+..+...|...|++++|...++...+... .+...+..+...|...|++
T Consensus       113 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~g~~  191 (252)
T 2ho1_A          113 GFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNR-NQPSVALEMADLLYKEREY  191 (252)
T ss_dssp             HHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHcCCH
Confidence            99999999999999999998733334 566788888999999999999999999988642 3578899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          328 NRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       328 ~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      ++|...++.+.+.... +...+..+...|...|+.++|.+.++++.+..
T Consensus       192 ~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          192 VPARQYYDLFAQGGGQ-NARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHHTTSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            9999999999887554 77888999999999999999999999998764

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.58  E-value=1e-13  Score=122.44  Aligned_cols=245  Identities=9%  Similarity=-0.093  Sum_probs=165.3

Q ss_pred             CcHHHHHHHHHHHHHCCC---ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH
Q 039177          148 NRVGFAIEILNCMINDGF---CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD  224 (453)
Q Consensus       148 ~~~~~a~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  224 (453)
                      +++++|+..|+.+.....   +.+..++..+...+...|+.  ++|...|+++.+.. +.+..+|..+...|...|++++
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLR--ALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccH--HHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            455556666666665421   12455777788888888888  88888888887765 3457778888888888888888


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          225 ALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       225 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      |++.|++..+.... +..++..+..++...|++++|...|+++.+..  |+.......+..+...|++++|...++....
T Consensus        96 A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            88888888775433 56777888888888888888888888887743  4444444555556677888888888876665


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 039177          305 LGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL---NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS  381 (453)
Q Consensus       305 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  381 (453)
                      .. .++...+ .++..+...++.++|...+....+.....   +..++..+...|.+.|++++|...|++..+.+  |+.
T Consensus       173 ~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~  248 (275)
T 1xnf_A          173 KS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--VHN  248 (275)
T ss_dssp             HS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CTT
T ss_pred             cC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--chh
Confidence            43 2233333 36666777777788888887776553211   14677777888888888888888888887653  322


Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHH
Q 039177          382 SMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       382 ~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                        +.....++...|++++|++.+
T Consensus       249 --~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 --FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --CHHHHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHHHHhhHHHH
Confidence              222344666677777776655

>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=99.57  E-value=7.9e-13  Score=121.87  Aligned_cols=242  Identities=9%  Similarity=0.022  Sum_probs=202.6

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC-hhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK-VFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      ...|..+...+...|+.  ++|+..++.+.+.. +-+..+|+.+...+...|+ +++|+..|++..+.... +...|..+
T Consensus        97 ~~a~~~lg~~~~~~g~~--~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~  172 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERS--ERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCC--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCh--HHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHH
Confidence            34677788888999999  99999999999876 4567889999999999997 99999999999987665 88899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCC
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK-VRE  326 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~~~  326 (453)
                      ..++...|++++|+..|+++++.. +-+...|..+..++.+.|++++|+..|+.+++.... +...|+.+..++.+ .|.
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCc
Confidence            999999999999999999999865 357888999999999999999999999999986532 67789999999999 666


Q ss_pred             HHHH-----HHHHHHHHHCCCCcCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC----
Q 039177          327 LNRL-----RELVKEMKWKGIVLNLQTYSIMIDGLASKG--DIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG----  395 (453)
Q Consensus       327 ~~~a-----~~~~~~~~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----  395 (453)
                      .++|     +..++..++.... +...|..+...+...|  ++++|.+.+.++ +. -..+...+..+...|.+.|    
T Consensus       251 ~~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~  327 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQC  327 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccc
Confidence            5777     5888888887665 7889999999999988  689999999988 33 2445667888888888874    


Q ss_pred             -----CHHHHHHHHHHH-hhCCCCCCHHHHHH
Q 039177          396 -----LVRKALELLKQM-ADKDVSPGARVWEA  421 (453)
Q Consensus       396 -----~~~~A~~~~~~m-~~~~~~p~~~~~~~  421 (453)
                           ..++|+++++++ .  .+.|...-|..
T Consensus       328 ~~~~~~~~~A~~~~~~l~~--~~DP~r~~~w~  357 (382)
T 2h6f_A          328 DNKEDILNKALELCEILAK--EKDTIRKEYWR  357 (382)
T ss_dssp             SSHHHHHHHHHHHHHHHHH--TTCGGGHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHH--HhCchhHHHHH
Confidence                 358999999998 5  35665444443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.57  E-value=2.4e-12  Score=109.74  Aligned_cols=209  Identities=9%  Similarity=-0.106  Sum_probs=177.6

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      +...+..+...+...|+.  ++|.+.++.+.+.. +.+...+..+...|...|++++|.+.++++.+.... +..++..+
T Consensus         7 ~~~~~~~~~~~~~~~~~~--~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l   82 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDY--RQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPD-SAEINNNY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-ChHHHHHH
Confidence            456788888899999999  99999999988865 456788999999999999999999999999886443 77889999


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 039177          248 LNGVIVQ-EDYVKAEELFDELLVLGLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR  325 (453)
Q Consensus       248 l~~~~~~-g~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  325 (453)
                      ...+... |++++|...++.+.+.+..| +...+..+...+...|++++|...++.+.+... .+...+..+...|.+.|
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~  161 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQP-QFPPAFKELARTKMLAG  161 (225)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHcC
Confidence            9999999 99999999999998833233 357788899999999999999999999988642 25788999999999999


Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 039177          326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSM  383 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  383 (453)
                      ++++|..+++.+.+.....+...+..+...+...|+.+.|..+++.+.+..  |+...
T Consensus       162 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~  217 (225)
T 2vq2_A          162 QLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF--PYSEE  217 (225)
T ss_dssp             CHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             CHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHH
Confidence            999999999999887552377788888899999999999999999987653  44443

>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=99.56  E-value=1.5e-11  Score=108.46  Aligned_cols=225  Identities=10%  Similarity=-0.035  Sum_probs=194.8

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHh----cCCCChHH
Q 039177          114 TPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCE----QRDLSSDE  189 (453)
Q Consensus       114 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~~~  189 (453)
                      -+...+..+...|...|++++|+..|++                  ...   .-+...+..+...+..    .++.  ++
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~------------------a~~---~~~~~a~~~lg~~~~~g~~~~~~~--~~   60 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEK------------------ACD---LKENSGCFNLGVLYYQGQGVEKNL--KK   60 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHH------------------HHH---TTCHHHHHHHHHHHHHTSSSCCCH--HH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHH------------------HHH---CCCHHHHHHHHHHHHcCCCcCCCH--HH
Confidence            3566788888899999999999988877                  333   2245677778888888    8888  99


Q ss_pred             HHHHHHHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 039177          190 LLGFVQEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV----QEDYVKAE  261 (453)
Q Consensus       190 a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~  261 (453)
                      |...|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +..++..+...|..    .+++++|+
T Consensus        61 A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~  134 (273)
T 1ouv_A           61 AASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAV  134 (273)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHH
Confidence            999999999876   67889999999999    999999999999999875   77888999999999    99999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHH
Q 039177          262 ELFDELLVLGLVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK----VRELNRLREL  333 (453)
Q Consensus       262 ~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~  333 (453)
                      ..|++..+.+   +...+..+...|..    .+++++|...|+...+.+   +...+..+...|..    .+++++|...
T Consensus       135 ~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~  208 (273)
T 1ouv_A          135 EYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALAR  208 (273)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHH
T ss_pred             HHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            9999999865   56777888888888    999999999999999864   56788889999999    9999999999


Q ss_pred             HHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 039177          334 VKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKG  376 (453)
Q Consensus       334 ~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  376 (453)
                      |+...+.+   +...+..+...|.+    .+++++|...|++..+.+
T Consensus       209 ~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          209 YSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            99999885   36788889999998    999999999999998876

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.56  E-value=4.2e-13  Score=116.07  Aligned_cols=203  Identities=14%  Similarity=0.086  Sum_probs=160.8

Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM  246 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (453)
                      .....|..+...+...|++  ++|...|+++.+.. +.+...+..+...|...|++++|++.|+++.+.... +..++..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~--~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~   96 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDY--EKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSS-AATAYYG   96 (243)
T ss_dssp             -----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCH--HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc-chHHHHH
Confidence            3556777888888999999  99999999998864 456788999999999999999999999999876543 7788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE  326 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  326 (453)
                      +...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|...++.+.+... .+...+..+...|.+.|+
T Consensus        97 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~  174 (243)
T 2q7f_A           97 AGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGM  174 (243)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCC
Confidence            9999999999999999999998865 35677888899999999999999999999987542 367789999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       327 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      +++|...++.+.+.... +..++..+..+|...|++++|...++++.+..
T Consensus       175 ~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          175 LDEALSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             CHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            99999999999887544 68899999999999999999999999998864

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.56  E-value=8e-13  Score=116.53  Aligned_cols=164  Identities=9%  Similarity=-0.037  Sum_probs=77.0

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      |..+...|...|++++|++.|++..+.... +..+|..+...|...|++++|...|++..+.. +.+...+..+...+..
T Consensus        77 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  154 (272)
T 3u4t_A           77 FEYYGKILMKKGQDSLAIQQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYY  154 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHH
Confidence            444445555555555555555555443222 33444555555555555555555555444431 1223333333312222


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCC-CCcC------HHHHHHHHHHHHh
Q 039177          289 QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE---LNRLRELVKEMKWKG-IVLN------LQTYSIMIDGLAS  358 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~-~~p~------~~~~~~li~~~~~  358 (453)
                      .+++++|.+.|+...+... .+...+..+..++...|+   +++|...++...+.. ..|+      ..+|..+...|..
T Consensus       155 ~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  233 (272)
T 3u4t_A          155 NKEYVKADSSFVKVLELKP-NIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTI  233 (272)
T ss_dssp             TTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHH
Confidence            3355555555555554321 123444445555555554   555555555544431 1111      1345555556666


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 039177          359 KGDIIEACGLLEEALNK  375 (453)
Q Consensus       359 ~g~~~~A~~~~~~m~~~  375 (453)
                      .|++++|...|++..+.
T Consensus       234 ~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          234 NRDKVKADAAWKNILAL  250 (272)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhc
Confidence            66666666666666554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.56  E-value=1.3e-11  Score=118.03  Aligned_cols=283  Identities=12%  Similarity=-0.078  Sum_probs=206.6

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHH
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELL  191 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~  191 (453)
                      .....+||.|...|...|+.++|++.|++           |++++.........| ...+|+.+..+|...|+.  ++|.
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~k-----------Al~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~--~~A~  114 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRK-----------AEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRL--SDVQ  114 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCH--HHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHH-----------HHHHHHhcCccccchHHHHHHHHHHHHHHHcCCh--HHHH
Confidence            34456899999999999999999999877           666665544322233 356889999999999999  9999


Q ss_pred             HHHHHHHHcC-------CCcChhhHHHHHHHHHhc--CChhHHHHHHHHHHhCCCCCCHHHHHHHHHH---HHhcCCHHH
Q 039177          192 GFVQEMKKLG-------FCFGMVDYTNVIRSLVKK--EKVFDALGILNQMKSDGIKPDIVCYTMVLNG---VIVQEDYVK  259 (453)
Q Consensus       192 ~~~~~~~~~g-------~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~---~~~~g~~~~  259 (453)
                      ..+++..+..       ......++..+..++...  +++++|++.|++..+..+. +...+..+..+   +...++.++
T Consensus       115 ~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~  193 (472)
T 4g1t_A          115 IYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQN  193 (472)
T ss_dssp             HHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCC
T ss_pred             HHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHH
Confidence            9998876531       011345566666666654  4689999999999886543 55555555544   345677888


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          260 AEELFDELLVLGLVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVK  335 (453)
Q Consensus       260 a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  335 (453)
                      |++.+++.++.. +.+..++..+...+..    .++.++|.+.++....... .+...+..+...|...|++++|...+.
T Consensus       194 al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~  271 (472)
T 4g1t_A          194 AIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLK  271 (472)
T ss_dssp             THHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHH
Confidence            999999887754 2345556555555544    4677899999999887542 366789999999999999999999999


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhc-------------------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          336 EMKWKGIVLNLQTYSIMIDGLASK-------------------GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       336 ~~~~~~~~p~~~~~~~li~~~~~~-------------------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      ...+..+. +..++..+..+|...                   +..+.|...+++..+.+ ..+...+..+...|...|+
T Consensus       272 ~al~~~p~-~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~  349 (472)
T 4g1t_A          272 KALEYIPN-NAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQ  349 (472)
T ss_dssp             HHHHHSTT-CHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTC
T ss_pred             HHHHhCCC-hHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhcc
Confidence            99987655 677777777666432                   34567888888887764 3455678888999999999


Q ss_pred             HHHHHHHHHHHhhCCCC
Q 039177          397 VRKALELLKQMADKDVS  413 (453)
Q Consensus       397 ~~~A~~~~~~m~~~~~~  413 (453)
                      +++|+..|++..+....
T Consensus       350 ~~~A~~~~~kaL~~~~~  366 (472)
T 4g1t_A          350 YEEAEYYFQKEFSKELT  366 (472)
T ss_dssp             HHHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHHHHHhcCCC
Confidence            99999999999865443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.55  E-value=3.1e-13  Score=119.32  Aligned_cols=225  Identities=10%  Similarity=-0.125  Sum_probs=181.7

Q ss_pred             cCCCChHHHHHHHHHHHHcCC---CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 039177          182 QRDLSSDELLGFVQEMKKLGF---CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYV  258 (453)
Q Consensus       182 ~~~~~~~~a~~~~~~~~~~g~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  258 (453)
                      .++.  ++|...++++.+...   +.+..+|..+...|...|++++|++.|+++.+.... +..+|..+...+...|+++
T Consensus        18 ~~~~--~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           18 TLQQ--EVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CHHH--HHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHH
T ss_pred             cchH--HHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCHH
Confidence            3455  899999999988632   224677999999999999999999999999987544 7889999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          259 KAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMK  338 (453)
Q Consensus       259 ~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  338 (453)
                      +|...|++..+.. +.+...+..+...|.+.|++++|...|+.+.+..  |+.......+..+...|++++|...+....
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999998864 3467888999999999999999999999999854  555555556666678899999999998887


Q ss_pred             HCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC
Q 039177          339 WKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT---QSSMFDETICGLCQRGLVRKALELLKQMADKDVSPG  415 (453)
Q Consensus       339 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  415 (453)
                      ..... +...+ .++..+...++.++|...+++........   +...+..+...|.+.|++++|...|++..+  +.|+
T Consensus       172 ~~~~~-~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~  247 (275)
T 1xnf_A          172 EKSDK-EQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVH  247 (275)
T ss_dssp             HHSCC-CSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCT
T ss_pred             hcCCc-chHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCch
Confidence            76432 33344 37777888899999999999886543111   146788889999999999999999999985  4564


Q ss_pred             H
Q 039177          416 A  416 (453)
Q Consensus       416 ~  416 (453)
                      .
T Consensus       248 ~  248 (275)
T 1xnf_A          248 N  248 (275)
T ss_dssp             T
T ss_pred             h
Confidence            3

>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=99.53  E-value=6.4e-12  Score=115.81  Aligned_cols=248  Identities=10%  Similarity=0.042  Sum_probs=170.3

Q ss_pred             hhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           80 PEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHR-FQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        80 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      ...|..+...+.+.|++++|+..++.+.+..  +.+..+|+.+..+|...|+ +++|+..|+++..              
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~--------------  160 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--------------  160 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHH--------------
Confidence            3456777777888888888888888888774  5677888888888888886 8888888777332              


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK  238 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  238 (453)
                          .. +-+...|..+..++...|++  ++|+..|+.+.+.. +-+...|..+..++.+.|++++|+..|+++.+..+.
T Consensus       161 ----l~-P~~~~a~~~~g~~~~~~g~~--~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~  232 (382)
T 2h6f_A          161 ----EQ-PKNYQVWHHRRVLVEWLRDP--SQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR  232 (382)
T ss_dssp             ----HC-TTCHHHHHHHHHHHHHHTCC--TTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT
T ss_pred             ----HC-CCCHHHHHHHHHHHHHccCH--HHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence                11 22556777888888888888  78888888887765 446677888888888888888888888888876554


Q ss_pred             CCHHHHHHHHHHHHh-cCCHHHH-----HHHHHHHHHCCCCCChhhHHHHHHHHHhcC--CHHHHHHHHHHHHHCCCCCC
Q 039177          239 PDIVCYTMVLNGVIV-QEDYVKA-----EELFDELLVLGLVPDVYTYNVYINGLCKQN--NVEAGIKMIACMEELGSKPD  310 (453)
Q Consensus       239 ~~~~~~~~ll~~~~~-~g~~~~a-----~~~~~~m~~~g~~~~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~  310 (453)
                       +...|+.+..++.. .|..++|     +..|++.++.. +-+...|+.+...+...|  ++++|.+.+..+ +. ...+
T Consensus       233 -~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~  308 (382)
T 2h6f_A          233 -NNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSS  308 (382)
T ss_dssp             -CHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCC
T ss_pred             -CHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCC
Confidence             67778888878777 5554666     46666666643 234556666666677666  467777777666 32 2234


Q ss_pred             HHHHHHHHHHHHhcC---------CHHHHHHHHHHH-HHCCCCcCHHHHHHHHHHH
Q 039177          311 VITYNTLLQALCKVR---------ELNRLRELVKEM-KWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       311 ~~~~~~li~~~~~~~---------~~~~a~~~~~~~-~~~~~~p~~~~~~~li~~~  356 (453)
                      ...+..+...|.+.|         .+++|..+++.+ .+.... ....|..+...+
T Consensus       309 ~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~DP~-r~~~w~~~~~~l  363 (382)
T 2h6f_A          309 PYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEKDTI-RKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTTCGG-GHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHhCch-hHHHHHHHHHHH
Confidence            556667777776653         246777777776 444322 334454444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.51  E-value=1.2e-12  Score=122.78  Aligned_cols=239  Identities=12%  Similarity=0.007  Sum_probs=140.8

Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHH
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPE----FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEIL  157 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~  157 (453)
                      .+..+...+...|++++|...|+.+.+..  +.+.    .++..+...|...|++++|+..|++           ++++.
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~-----------al~~~  116 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKH-----------DLTLA  116 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH-----------HHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHH-----------HHHHH
Confidence            34456678889999999999999999873  3333    5788899999999999999999887           33333


Q ss_pred             HHHHHCCCc-cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc----C-CCcChhhHHHHHHHHHhcCC----------
Q 039177          158 NCMINDGFC-VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL----G-FCFGMVDYTNVIRSLVKKEK----------  221 (453)
Q Consensus       158 ~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~li~~~~~~g~----------  221 (453)
                      ...   +.. ....++..+...+...|++  ++|...+++..+.    + .+....++..+...|...|+          
T Consensus       117 ~~~---~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~  191 (411)
T 4a1s_A          117 KSM---NDRLGEAKSSGNLGNTLKVMGRF--DEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKF  191 (411)
T ss_dssp             HHT---TCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCC
T ss_pred             HHc---cCchHHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhh
Confidence            222   212 2345677777888888888  8888888776654    1 11224457777777777777          


Q ss_pred             -------hhHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----hhhHHHHHH
Q 039177          222 -------VFDALGILNQMKSD----GI-KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLV-PD----VYTYNVYIN  284 (453)
Q Consensus       222 -------~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~  284 (453)
                             +++|++.+++..+.    +. .....++..+...|...|++++|...+++..+.... .+    ...+..+..
T Consensus       192 ~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  271 (411)
T 4a1s_A          192 GDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGN  271 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence                   77777766665431    10 112235555555666666666666666655432100 01    113444455


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSK-PD----VITYNTLLQALCKVRELNRLRELVKEMK  338 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~  338 (453)
                      .|...|++++|...+++..+.... .+    ..++..+...|...|++++|...++...
T Consensus       272 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  330 (411)
T 4a1s_A          272 SHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHL  330 (411)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555555555544331100 00    2334444444445555555555444443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=1.8e-12  Score=121.28  Aligned_cols=302  Identities=11%  Similarity=0.017  Sum_probs=218.0

Q ss_pred             CChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHH
Q 039177           78 PPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETP----EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFA  153 (453)
Q Consensus        78 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a  153 (453)
                      .....+......+...|++++|...|+.+.+..  +.+    ..++..+...|...|++++|...|++           +
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-----------a   73 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHH-----------D   73 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------H
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH-----------H
Confidence            344556677788899999999999999999873  333    35788899999999999999999887           3


Q ss_pred             HHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC----CC-cChhhHHHHHHHHHhcCC------
Q 039177          154 IEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG----FC-FGMVDYTNVIRSLVKKEK------  221 (453)
Q Consensus       154 ~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g----~~-~~~~~~~~li~~~~~~g~------  221 (453)
                      +.+...   .+..| ...++..+...+...|+.  ++|...+++..+..    .. ....++..+...|...|+      
T Consensus        74 l~~~~~---~~~~~~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~  148 (406)
T 3sf4_A           74 LTLART---IGDQLGEAKASGNLGNTLKVLGNF--DEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPG  148 (406)
T ss_dssp             HHHHHH---TTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC---
T ss_pred             HHHHHh---ccccHHHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccc
Confidence            333322   22222 245778888899999998  99999988876542    11 114478889999999999      


Q ss_pred             --------------hhHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hh
Q 039177          222 --------------VFDALGILNQMKSD----GIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-VPD----VY  277 (453)
Q Consensus       222 --------------~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~----~~  277 (453)
                                    +++|++.+++..+.    +.. ....++..+...|...|++++|...+++..+... .++    ..
T Consensus       149 ~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  228 (406)
T 3sf4_A          149 PQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERR  228 (406)
T ss_dssp             ----CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence                          99999998877542    111 1235677888899999999999999988765210 111    23


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cC----HH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSK-PD----VITYNTLLQALCKVRELNRLRELVKEMKWKGIV-LN----LQ  347 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~  347 (453)
                      ++..+...|...|++++|...++...+.... .+    ..++..+...|...|++++|...++...+.... .+    ..
T Consensus       229 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  308 (406)
T 3sf4_A          229 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGR  308 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHH
Confidence            6778888899999999999999887642110 11    457788889999999999999999887764111 11    55


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHhCCCH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNK----GLCT-QSSMFDETICGLCQRGLV  397 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~  397 (453)
                      ++..+...|...|++++|...+++..+.    +..+ ...++..+...+...|+.
T Consensus       309 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          309 ACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            7788888999999999999999887653    2111 133455556666666654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.49  E-value=3.6e-11  Score=108.14  Aligned_cols=216  Identities=13%  Similarity=0.036  Sum_probs=150.6

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHH-------hcCCh-------hHHHHHHHHHHhC-CCCCCHHHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLV-------KKEKV-------FDALGILNQMKSD-GIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~-------~~g~~-------~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~  252 (453)
                      ++|..+|++..... +.+...|..++..+.       +.|++       ++|..+|++..+. .+ -+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p-~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLK-KNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            45666676666643 445666776666665       34665       7888888888773 32 25567778888888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCC-hh-hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPD-VY-TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC-KVRELNR  329 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~-~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~~~~~~  329 (453)
                      +.|++++|..+|++.++.  .|+ .. .|..+...+.+.|++++|..+|+...+... .+...|........ ..|++++
T Consensus       111 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888774  343 22 677778888888888888888888877542 23344443333322 3688888


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--ChhhHHHHHHHHHhCCCHHHHHHHHHH
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG-LCT--QSSMFDETICGLCQRGLVRKALELLKQ  406 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~  406 (453)
                      |..+|+...+.... +...|..++..+.+.|++++|..+|++..... +.|  ....|..++..+.+.|+.++|..++++
T Consensus       188 A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          188 AFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888888776443 67778888888888888888888888887763 344  345677777777788888888888888


Q ss_pred             Hhh
Q 039177          407 MAD  409 (453)
Q Consensus       407 m~~  409 (453)
                      +.+
T Consensus       267 a~~  269 (308)
T 2ond_A          267 RFT  269 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            774

>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=99.48  E-value=1.5e-10  Score=118.35  Aligned_cols=308  Identities=13%  Similarity=0.140  Sum_probs=182.1

Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---------CCcHHH
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---------INRVGF  152 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---------~~~~~~  152 (453)
                      .-+.++.+..+. +.....+....+...        ....+...+...|.+++|..+|++.....         .+++++
T Consensus      1024 LqnlLi~tAIka-D~~Rv~eyI~kLd~~--------d~~eIA~Iai~lglyEEAf~IYkKa~~~~~A~~VLie~i~nldr 1094 (1630)
T 1xi4_A         1024 LQNLLILTAIKA-DRTRVMEYINRLDNY--------DAPDIANIAISNELFEEAFAIFRKFDVNTSAVQVLIEHIGNLDR 1094 (1630)
T ss_pred             HHHHHHHHHHHh-ChhhHHHHHHHhhhc--------cHHHHHHHHHhCCCHHHHHHHHHHcCCHHHHHHHHHHHHhhHHH
Confidence            344455555555 445555555444311        13335566666777777777777754222         344444


Q ss_pred             HHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 039177          153 AIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQM  232 (453)
Q Consensus       153 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  232 (453)
                      |.++.++.      -+..+|..+..++...|++  ++|.+.|...      -|...|..++..|.+.|++++|++.|...
T Consensus      1095 AiE~Aerv------n~p~vWsqLAKAql~~G~~--kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mA 1160 (1630)
T 1xi4_A         1095 AYEFAERC------NEPAVWSQLAKAQLQKGMV--KEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMA 1160 (1630)
T ss_pred             HHHHHHhc------CCHHHHHHHHHHHHhCCCH--HHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44444432      2456677777777777777  7777776442      35666777777777777777777777766


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 039177          233 KSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVI  312 (453)
Q Consensus       233 ~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  312 (453)
                      ++..  ++....+.++.+|++.+++++...+.    +   .++...|..+...|...|++++|..+|...         .
T Consensus      1161 rk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ 1222 (1630)
T 1xi4_A         1161 RKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------S 1222 (1630)
T ss_pred             Hhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------h
Confidence            6543  22222334666666666666433322    1   234455555666666666666666666653         2


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC------------------------CCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWK------------------------GIVLNLQTYSIMIDGLASKGDIIEACGL  368 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~------------------------~~~p~~~~~~~li~~~~~~g~~~~A~~~  368 (453)
                      .|..+...|.+.|++++|.+.++.....                        ++..+...+..++..|.+.|.+++|+.+
T Consensus      1223 ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~L 1302 (1630)
T 1xi4_A         1223 NFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITM 1302 (1630)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            4566666666666666666555433211                        1122555677888899999999999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHhC--CCHHHHHHHHHHHhhCCCCC------CHHHHHHHHhchhcchhhH
Q 039177          369 LEEALNKGLCTQSSMFDETICGLCQR--GLVRKALELLKQMADKDVSP------GARVWEALLLSSVSKLDFV  433 (453)
Q Consensus       369 ~~~m~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~p------~~~~~~~ll~a~~~~~~~~  433 (453)
                      ++...... .-...+|..+...|++-  ++..++.++|..-.  .+.|      +...|..++.-|..-++..
T Consensus      1303 lE~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~d 1372 (1630)
T 1xi4_A         1303 LEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYD 1372 (1630)
T ss_pred             HHHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHH
Confidence            98887655 44556777777777664  34555555555332  3333      4566777766665444433

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.48  E-value=1.6e-11  Score=101.34  Aligned_cols=166  Identities=13%  Similarity=0.035  Sum_probs=89.1

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      +..+|..+...|.+.|++++|++.|++..+..+. +..+|..+..+|.+.|++++|...+....... ..+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            3445556666666666666666666665554333 45555555556666666666666655555433 223444444455


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      .+...++++.+...+....+... -+...+..+...|.+.|++++|+..|+...+..+. +..+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            55555555555555555554321 13445555555555555555555555555554333 44555555555555555555


Q ss_pred             HHHHHHHHHH
Q 039177          365 ACGLLEEALN  374 (453)
Q Consensus       365 A~~~~~~m~~  374 (453)
                      |.+.|++..+
T Consensus       160 A~~~~~~al~  169 (184)
T 3vtx_A          160 AVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            5555555544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.47  E-value=3.9e-12  Score=115.39  Aligned_cols=279  Identities=13%  Similarity=0.062  Sum_probs=153.1

Q ss_pred             hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHH
Q 039177           82 AYHFVIKTLAENSQFCDISSVLDHIEKRENFETP----EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEIL  157 (453)
Q Consensus        82 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~  157 (453)
                      .+......+...|++++|...|+.+.+..  +.+    ..++..+...|...|++++|...|++           ++++.
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-----------al~~~   73 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHH-----------DLTLA   73 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH-----------HHHHh
Confidence            34455677888999999999999999873  333    46788899999999999999999877           33333


Q ss_pred             HHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCC-cC----hhhHHHHHHHHHhcCC----------
Q 039177          158 NCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFC-FG----MVDYTNVIRSLVKKEK----------  221 (453)
Q Consensus       158 ~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~li~~~~~~g~----------  221 (453)
                      ...   +..| ...++..+...+...|++  ++|...+++..+.... .+    ..++..+...|...|+          
T Consensus        74 ~~~---~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  148 (338)
T 3ro2_A           74 RTI---GDQLGEAKASGNLGNTLKVLGNF--DEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDT  148 (338)
T ss_dssp             HHH---TCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC--
T ss_pred             hcc---cccHHHHHHHHHHHHHHHHccCH--HHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhh
Confidence            222   2122 244666677777777777  7777777765543100 11    2356666666777776          


Q ss_pred             ----------hhHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          222 ----------VFDALGILNQMKSD----GI-KPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       222 ----------~~~a~~~~~~m~~~----~~-~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                                +++|.+.+++..+.    +. .....++..+...+...|++++|...+++..+...              
T Consensus       149 ~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~--------------  214 (338)
T 3ro2_A          149 GEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAK--------------  214 (338)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH--------------
T ss_pred             hhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH--------------
Confidence                      66666666554321    00 00122344444444555555555555544432100              


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-cC----HHHHHHHHHHHHhcC
Q 039177          287 CKQNNVEAGIKMIACMEELGSK-PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIV-LN----LQTYSIMIDGLASKG  360 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~~li~~~~~~g  360 (453)
                                       ..+.. ....++..+...|...|++++|...++...+.... .+    ..++..+...|...|
T Consensus       215 -----------------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  277 (338)
T 3ro2_A          215 -----------------EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQ  277 (338)
T ss_dssp             -----------------HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             -----------------hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhc
Confidence                             00000 00124444555555555555555555544432100 01    334555555566666


Q ss_pred             CHHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          361 DIIEACGLLEEALNK----GL-CTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       361 ~~~~A~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ++++|...+++..+.    +- .....++..+...|.+.|++++|..++++..+
T Consensus       278 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          278 DYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            666666666555432    10 01122455556666666666666666666553

>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=1.7e-11  Score=101.05  Aligned_cols=174  Identities=13%  Similarity=0.048  Sum_probs=151.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      +...|..+...|...|++++|+..|++.++.. +-+..++..+..+|.+.|++++|...+........ .+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            67789999999999999999999999998865 34678889999999999999999999999988643 35678888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHH
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK  399 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  399 (453)
                      .+...++++.+...+....+.... +...+..+...|.+.|++++|++.|++..+.+ +.+...|..+...|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            999999999999999999887655 78899999999999999999999999998875 4466788999999999999999


Q ss_pred             HHHHHHHHhhCCCCCCHHHH
Q 039177          400 ALELLKQMADKDVSPGARVW  419 (453)
Q Consensus       400 A~~~~~~m~~~~~~p~~~~~  419 (453)
                      |++.|++..+  +.|+...|
T Consensus       160 A~~~~~~al~--~~p~~a~~  177 (184)
T 3vtx_A          160 AVKYFKKALE--KEEKKAKY  177 (184)
T ss_dssp             HHHHHHHHHH--TTHHHHHH
T ss_pred             HHHHHHHHHh--CCccCHHH
Confidence            9999999885  45655433

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.47  E-value=1.8e-12  Score=121.59  Aligned_cols=272  Identities=12%  Similarity=-0.029  Sum_probs=206.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC-h----HhHHHHHHHHHhcCCCChHHH
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD-G----KTCSLILSSVCEQRDLSSDEL  190 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~----~~~~~ll~~~~~~~~~~~~~a  190 (453)
                      ...+..+...+...|++++|+..|++..+                  .  .|+ .    ..+..+...+...|++  ++|
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~------------------~--~~~~~~~~~~~~~~lg~~~~~~g~~--~~A  105 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQ------------------A--GTEDLRTLSAIYSQLGNAYFYLGDY--NKA  105 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH------------------H--CCSCHHHHHHHHHHHHHHHHHHTCH--HHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHH------------------h--cccChhHHHHHHHHHHHHHHHCCCH--HHH
Confidence            34455677788889999999998887432                  1  232 2    4678888899999999  999


Q ss_pred             HHHHHHHHHc----C-CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----C-CCCCHHHHHHHHHHHHhcCC----
Q 039177          191 LGFVQEMKKL----G-FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD----G-IKPDIVCYTMVLNGVIVQED----  256 (453)
Q Consensus       191 ~~~~~~~~~~----g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~ll~~~~~~g~----  256 (453)
                      ...+++..+.    + .+....++..+...|...|++++|+..+++..+.    + ......++..+...|...|+    
T Consensus       106 ~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~  185 (411)
T 4a1s_A          106 MQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQ  185 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCccccc
Confidence            9999887654    1 1234567889999999999999999999988753    1 12234578888899999999    


Q ss_pred             -------------HHHHHHHHHHHHHC----CC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHH
Q 039177          257 -------------YVKAEELFDELLVL----GL-VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSK-PD----VIT  313 (453)
Q Consensus       257 -------------~~~a~~~~~~m~~~----g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~  313 (453)
                                   +++|...+++..+.    +. .....++..+...|...|++++|...+++..+.... .+    ..+
T Consensus       186 ~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (411)
T 4a1s_A          186 RNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRA  265 (411)
T ss_dssp             HSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             ccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHH
Confidence                         99999999886542    11 112347788888999999999999999988753210 12    237


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-----cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCChhh
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKGIV-----LNLQTYSIMIDGLASKGDIIEACGLLEEALNK----GL-CTQSSM  383 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~~~~~~  383 (453)
                      +..+...|...|++++|...++...+....     ....++..+...|...|++++|...+++..+.    +. .....+
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  345 (411)
T 4a1s_A          266 NSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARA  345 (411)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHH
Confidence            888999999999999999999988764211     12567888999999999999999999988754    11 111346


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          384 FDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       384 ~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +..+...|...|++++|..++++..+
T Consensus       346 ~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          346 CWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            77888999999999999999999875

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.45  E-value=5e-12  Score=120.76  Aligned_cols=214  Identities=10%  Similarity=-0.087  Sum_probs=172.2

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh-hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV-FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDE  266 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~  266 (453)
                      +++...++...... +.+...+..+...|...|++ ++|++.|++..+.... +...|..+..+|...|++++|...|++
T Consensus        85 ~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           85 EKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55666666555443 34677888888999999999 9999999998876543 678888999999999999999999999


Q ss_pred             HHHCCCCCChhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------CCHHH
Q 039177          267 LLVLGLVPDVYTYNVYINGLCKQ---------NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV--------RELNR  329 (453)
Q Consensus       267 m~~~g~~~~~~~~~~li~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------~~~~~  329 (453)
                      .++..  |+...+..+...|...         |++++|.+.|++..+... -+...|..+..+|...        |++++
T Consensus       163 al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            88754  6678888888888888         999999999999888542 2567888888888888        88999


Q ss_pred             HHHHHHHHHHCCCC--cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          330 LRELVKEMKWKGIV--LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       330 a~~~~~~~~~~~~~--p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      |...|+...+....  -+...|..+..+|...|++++|.+.|++..+.. ..+...+..+...+...|++++|++.+.++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999887441  278889999999999999999999999988764 335566788888888888888888755443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.44  E-value=6.5e-12  Score=117.39  Aligned_cols=275  Identities=12%  Similarity=-0.019  Sum_probs=207.8

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC-----hHhHHHHHHHHHhcCCCCh
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD-----GKTCSLILSSVCEQRDLSS  187 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~  187 (453)
                      ......+......+...|++++|+..|++..+                  .  .|+     ..++..+...+...|++  
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~------------------~--~~~~~~~~~~~~~~l~~~~~~~g~~--   63 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQ------------------V--GTEDLKTLSAIYSQLGNAYFYLHDY--   63 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH------------------H--CCSCHHHHHHHHHHHHHHHHHTTCH--
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHh------------------c--CcccHHHHHHHHHHHHHHHHHhcCH--
Confidence            34556677788889999999999999887432                  1  222     35678888899999999  


Q ss_pred             HHHHHHHHHHHHc----CCCc-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCC-
Q 039177          188 DELLGFVQEMKKL----GFCF-GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGI-----KPDIVCYTMVLNGVIVQED-  256 (453)
Q Consensus       188 ~~a~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----~~~~~~~~~ll~~~~~~g~-  256 (453)
                      ++|...+++....    +..+ ...++..+...|...|++++|+..+++..+...     .....++..+...|...|+ 
T Consensus        64 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  143 (406)
T 3sf4_A           64 AKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKS  143 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCc
Confidence            9999999886543    2222 255688899999999999999999998875311     1124478888889999999 


Q ss_pred             -------------------HHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC-
Q 039177          257 -------------------YVKAEELFDELLVL----GLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELGS-KPD-  310 (453)
Q Consensus       257 -------------------~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-  310 (453)
                                         +++|...+.+..+.    +..+ ...++..+...|...|++++|...+++..+... .++ 
T Consensus       144 ~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  223 (406)
T 3sf4_A          144 FGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK  223 (406)
T ss_dssp             CC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCc
Confidence                               99999999887542    1111 234678888899999999999999998775311 122 


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC
Q 039177          311 ---VITYNTLLQALCKVRELNRLRELVKEMKWKGI----VL-NLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLC  378 (453)
Q Consensus       311 ---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~  378 (453)
                         ..++..+...|...|++++|...++...+...    .+ ...++..+...|...|++++|...+++..+.    +-.
T Consensus       224 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  303 (406)
T 3sf4_A          224 AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDR  303 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCc
Confidence               23788889999999999999999998875411    11 1557888999999999999999999988654    111


Q ss_pred             C-ChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          379 T-QSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       379 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      + ...++..+...|...|++++|...+++..+
T Consensus       304 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          304 IGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1 144677888899999999999999998764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=7.5e-12  Score=112.41  Aligned_cols=239  Identities=13%  Similarity=-0.024  Sum_probs=161.8

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-------CCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC-----
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-------GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD-----  235 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-------g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----  235 (453)
                      +..++..+...+...|++  ++|..+++++.+.       ..+....++..+...|...|++++|+..+++..+.     
T Consensus        26 ~~~~~~~l~~~~~~~g~~--~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  103 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRY--EVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTL  103 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence            345778888888888988  8999999888774       23344567888888999999999999999888753     


Q ss_pred             -C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-
Q 039177          236 -G-IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL------GLV-PDVYTYNVYINGLCKQNNVEAGIKMIACMEEL-  305 (453)
Q Consensus       236 -~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------g~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-  305 (453)
                       + ......++..+...|...|++++|...+++..+.      +.. .....+..+...|...|++++|.+.++...+. 
T Consensus       104 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~  183 (311)
T 3nf1_A          104 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIY  183 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             1 1224567788888888999999999999888763      211 23456777888888999999999999888764 


Q ss_pred             -----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-------CCcC-------HHHHHHHHHHHHhcCCHHHH
Q 039177          306 -----GSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKG-------IVLN-------LQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       306 -----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-------~~p~-------~~~~~~li~~~~~~g~~~~A  365 (453)
                           +..|+ ..++..+...|...|++++|...++.+.+..       ..+.       ...+..+...+...+.+.+|
T Consensus       184 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  263 (311)
T 3nf1_A          184 QTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEY  263 (311)
T ss_dssp             HHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHH
Confidence                 21232 3467888888889999999999998887631       1111       11222233334445555566


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          366 CGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       366 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ...+....... .....++..+...|.+.|++++|.++|++..+
T Consensus       264 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          264 GGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             C---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66666655432 33455688888999999999999999998764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=2.2e-12  Score=115.95  Aligned_cols=249  Identities=12%  Similarity=0.001  Sum_probs=175.4

Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHH
Q 039177          113 ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLG  192 (453)
Q Consensus       113 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~  192 (453)
                      +.+..++..+...|...|++++|+.+|++           +++++.............++..+...+...|+.  ++|..
T Consensus        24 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-----------a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~--~~A~~   90 (311)
T 3nf1_A           24 PARLRTLHNLVIQYASQGRYEVAVPLCKQ-----------ALEDLEKTSGHDHPDVATMLNILALVYRDQNKY--KDAAN   90 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCH--HHHHH
T ss_pred             hHHHHHHHHHHHHHHHcCCHHHHHHHHHH-----------HHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCH--HHHHH
Confidence            44567888999999999999999999987           444444443222333456788899999999999  99999


Q ss_pred             HHHHHHHc------C-CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhcCCHH
Q 039177          193 FVQEMKKL------G-FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD------GI-KPDIVCYTMVLNGVIVQEDYV  258 (453)
Q Consensus       193 ~~~~~~~~------g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~-~~~~~~~~~ll~~~~~~g~~~  258 (453)
                      .+++..+.      + .+....++..+...|...|++++|++.|++..+.      +. .....++..+...+...|+++
T Consensus        91 ~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  170 (311)
T 3nf1_A           91 LLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYE  170 (311)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            99988765      2 2334567899999999999999999999998764      22 224567888899999999999


Q ss_pred             HHHHHHHHHHHC------CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCH-------HHHHHH
Q 039177          259 KAEELFDELLVL------GLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEEL-------GSKPDV-------ITYNTL  317 (453)
Q Consensus       259 ~a~~~~~~m~~~------g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~-------~~~~~l  317 (453)
                      +|..++++..+.      +..| ...++..+...|...|++++|...++.+.+.       ...+..       ..+..+
T Consensus       171 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (311)
T 3nf1_A          171 EVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREEC  250 (311)
T ss_dssp             HHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHh
Confidence            999999998764      2122 3456788899999999999999999998752       111111       123333


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+...+.+.++...+......... +..++..+..+|.+.|++++|.+.|++..+.
T Consensus       251 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          251 KGKQKDGTSFGEYGGWYKACKVDSPT-VTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             -------CCSCCCC---------CHH-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cCchhhHHHHHHHHHHHhhcCCCCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34444556666667777766654322 5678899999999999999999999988653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.41  E-value=1e-11  Score=112.60  Aligned_cols=235  Identities=11%  Similarity=-0.015  Sum_probs=133.1

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hh
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSD----GIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-VPD----VY  277 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~----~~  277 (453)
                      .+..+...|...|++++|++.+++..+.    +.. ....++..+...+...|++++|...+++..+... ..+    ..
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  124 (338)
T 3ro2_A           45 IYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEAR  124 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHH
Confidence            3444444444444444444444443221    000 1133444444455555555555555544332100 011    22


Q ss_pred             hHHHHHHHHHhcCC--------------------HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 039177          278 TYNVYINGLCKQNN--------------------VEAGIKMIACMEEL----GSKP-DVITYNTLLQALCKVRELNRLRE  332 (453)
Q Consensus       278 ~~~~li~~~~~~~~--------------------~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~  332 (453)
                      ++..+...|...|+                    +++|.+.++...+.    +..+ ...++..+...|...|++++|..
T Consensus       125 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  204 (338)
T 3ro2_A          125 ALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVI  204 (338)
T ss_dssp             HHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            44555555555555                    66666666554321    1111 13467778888888999999999


Q ss_pred             HHHHHHHCC----C-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCC----hhhHHHHHHHHHhCCCHHHHHH
Q 039177          333 LVKEMKWKG----I-VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL-CTQ----SSMFDETICGLCQRGLVRKALE  402 (453)
Q Consensus       333 ~~~~~~~~~----~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~  402 (453)
                      .++...+..    . .....++..+...|...|++++|...+++..+... ..+    ..++..+...|...|++++|..
T Consensus       205 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  284 (338)
T 3ro2_A          205 AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAID  284 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            888876541    1 11234788889999999999999999998865411 111    4567788899999999999999


Q ss_pred             HHHHHhhC----CCCCC-HHHHHHHHhchh--cchhhHHHHHHHHHH
Q 039177          403 LLKQMADK----DVSPG-ARVWEALLLSSV--SKLDFVNTSFIRLVD  442 (453)
Q Consensus       403 ~~~~m~~~----~~~p~-~~~~~~ll~a~~--~~~~~~~~~~~~~~~  442 (453)
                      ++++..+.    +-.+. ..++..+-..+.  ++.+.+...+.+.++
T Consensus       285 ~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          285 YHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            99998652    11111 224444444443  444445555555544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=3.9e-11  Score=111.49  Aligned_cols=230  Identities=12%  Similarity=0.026  Sum_probs=175.1

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHc----CCCc-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC--C----CCCHHH
Q 039177          175 ILSSVCEQRDLSSDELLGFVQEMKKL----GFCF-GMVDYTNVIRSLVKKEKVFDALGILNQMKSDG--I----KPDIVC  243 (453)
Q Consensus       175 ll~~~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~----~~~~~~  243 (453)
                      ....+...|+.  ++|...+++..+.    +..+ ...++..+...|...|++++|+..+++..+..  .    .....+
T Consensus       109 ~g~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  186 (383)
T 3ulq_A          109 RGMYELDQREY--LSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQC  186 (383)
T ss_dssp             HHHHHHHTTCH--HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHH
T ss_pred             HHHHHHHhcCH--HHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHH
Confidence            45567788888  9999999998765    2122 34678999999999999999999999887531  1    112457


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHH
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLV-PD----VYTYNVYINGLCKQNNVEAGIKMIACMEEL----GS-KPDVIT  313 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~  313 (453)
                      ++.+...|...|++++|...|++..+.... .+    ..++..+...|...|++++|.+.|++..+.    +. .....+
T Consensus       187 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  266 (383)
T 3ulq_A          187 HSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQA  266 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHH
Confidence            888889999999999999999988653111 11    247788899999999999999999988762    22 223568


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-hhhHH
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKG----IVLNLQTYSIMIDGLASKGD---IIEACGLLEEALNKGLCTQ-SSMFD  385 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~~~-~~~~~  385 (453)
                      +..+...|.+.|++++|...++...+..    -......+..+...|...|+   +++|..++++.   +..++ ...+.
T Consensus       267 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~  343 (383)
T 3ulq_A          267 YFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAI  343 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHH
Confidence            8999999999999999999999887641    11123345778888889999   77777777765   32232 34677


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          386 ETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       386 ~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .+...|...|++++|..++++..+
T Consensus       344 ~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          344 DVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            788999999999999999999764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.39  E-value=6.4e-10  Score=99.91  Aligned_cols=218  Identities=8%  Similarity=0.013  Sum_probs=113.3

Q ss_pred             chHHHHHHHHHHcCCCCCCHHHHHHHHHHHHh-------cCCh-------hHHHHHHhhcccCCCCcHHHHHHHHHHHHH
Q 039177           97 CDISSVLDHIEKRENFETPEFIFIDLIKTYAD-------AHRF-------QDSVNLFYKIPKFRINRVGFAIEILNCMIN  162 (453)
Q Consensus        97 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~  162 (453)
                      +.|..+|++.....  +.+..+|..++..+..       .|++       ++|+.+|++                  .+.
T Consensus        33 ~~a~~~~~~al~~~--p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~r------------------Al~   92 (308)
T 2ond_A           33 KRVMFAYEQCLLVL--GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYER------------------AIS   92 (308)
T ss_dssp             HHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHH------------------HHT
T ss_pred             HHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHH------------------HHH
Confidence            57788999998863  6678899988888764       3554       444444443                  332


Q ss_pred             CCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC-hh-hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC
Q 039177          163 DGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG-MV-DYTNVIRSLVKKEKVFDALGILNQMKSDGIKP  239 (453)
Q Consensus       163 ~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  239 (453)
                      . +.| +...|..+...+...|+.  ++|..+|++..+..  |+ .. +|..++..+.+.|++++|..+|++..+.... 
T Consensus        93 ~-~~p~~~~~~~~~~~~~~~~~~~--~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-  166 (308)
T 2ond_A           93 T-LLKKNMLLYFAYADYEESRMKY--EKVHSIYNRLLAIE--DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-  166 (308)
T ss_dssp             T-TTTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHTSS--SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-
T ss_pred             H-hCcccHHHHHHHHHHHHhcCCH--HHHHHHHHHHHhcc--ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCC-
Confidence            1 123 233555555555555555  56666666555532  22 22 4555555555555555555555555543221 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      +...|.......                                  +...|+.++|..+|+...+... -+...|..++.
T Consensus       167 ~~~~~~~~a~~~----------------------------------~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~  211 (308)
T 2ond_A          167 RHHVYVTAALME----------------------------------YYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYID  211 (308)
T ss_dssp             CTHHHHHHHHHH----------------------------------HHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHH
T ss_pred             CHHHHHHHHHHH----------------------------------HHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            222222111111                                  1123555555555555544321 13445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCC-CCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          320 ALCKVRELNRLRELVKEMKWKG-IVL--NLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~-~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+.+.|++++|..+|+...... ..|  ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       212 ~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          212 YLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5555555555555555555542 222  3445555555555556666666655555543

>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=99.35  E-value=2.1e-10  Score=94.13  Aligned_cols=164  Identities=13%  Similarity=0.005  Sum_probs=100.3

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                      ..+..+...+...|++++|++.++++.+.... +..++..+...+...|++++|...++.+.+.. +.+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAF-DVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34556666667777777777777766654322 55666666666677777777777777666543 23455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      ...|++++|.+.++.+.+.. ..+...+..+...|...|++++|...++.+.+.... +...+..+...|...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665542 124455666666666666666666666666555332 4555666666666666666666


Q ss_pred             HHHHHHHH
Q 039177          367 GLLEEALN  374 (453)
Q Consensus       367 ~~~~~m~~  374 (453)
                      ..+++..+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.34  E-value=1.2e-10  Score=108.07  Aligned_cols=229  Identities=11%  Similarity=-0.001  Sum_probs=158.8

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCC-Cc----ChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----C-CCC-CHHH
Q 039177          175 ILSSVCEQRDLSSDELLGFVQEMKKLGF-CF----GMVDYTNVIRSLVKKEKVFDALGILNQMKSD----G-IKP-DIVC  243 (453)
Q Consensus       175 ll~~~~~~~~~~~~~a~~~~~~~~~~g~-~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~-~~~~  243 (453)
                      ....+...|+.  ++|...|++..+... .+    ...++..+...|...|+++.|+..+++..+.    + ..+ ...+
T Consensus       107 ~g~~~~~~g~~--~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  184 (378)
T 3q15_A          107 RGMYEFDQKEY--VEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQS  184 (378)
T ss_dssp             HHHHHHHTTCH--HHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHCCH--HHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHH
Confidence            34445677887  888888888765421 11    2456788888888999999998888887652    1 111 2456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHH
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVL----GLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEE-----LGSKPDVIT  313 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~  313 (453)
                      ++.+..+|...|++++|...|.+..+.    +..+ ...++..+...|...|++++|.+.|++..+     ... ....+
T Consensus       185 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~~  263 (378)
T 3q15_A          185 LFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD-LLPKV  263 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG-GHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh-hHHHH
Confidence            777888888899999999888877652    1111 134567778888889999999988888776     322 23567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-ChhhHH
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKG----IVLNLQTYSIMIDGLASKGD---IIEACGLLEEALNKGLCT-QSSMFD  385 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~~-~~~~~~  385 (453)
                      +..+...|.+.|++++|...++...+..    -......+..+...|...|+   +.+|...+++   .+..+ ....+.
T Consensus       264 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~  340 (378)
T 3q15_A          264 LFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACAR  340 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHH
Confidence            8888888889999999999988887642    11123355666667777777   7777777765   22222 233566


Q ss_pred             HHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          386 ETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       386 ~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .+...|...|++++|...|++..+
T Consensus       341 ~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          341 SAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777888889999999988888753

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.33  E-value=1.3e-10  Score=111.08  Aligned_cols=196  Identities=13%  Similarity=0.038  Sum_probs=165.1

Q ss_pred             hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 039177          222 VFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY-VKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIA  300 (453)
Q Consensus       222 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~  300 (453)
                      +++++..++....... .+...+..+..++...|++ ++|++.|++.++.. +.+...|..+..+|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~~-~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQ-VEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCC-CCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCc-hhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5677777777665433 4788899999999999999 99999999998864 3457899999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc--------CCHH
Q 039177          301 CMEELGSKPDVITYNTLLQALCKV---------RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK--------GDII  363 (453)
Q Consensus       301 ~m~~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~--------g~~~  363 (453)
                      ...+.  .|+...+..+...|...         |++++|...+++..+.... +...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99985  47788999999999999         9999999999999998665 788999999999998        9999


Q ss_pred             HHHHHHHHHHHCCCC--CChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH-HHHHHHHh
Q 039177          364 EACGLLEEALNKGLC--TQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA-RVWEALLL  424 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~ll~  424 (453)
                      +|...|++..+.+..  .+...|..+...|...|++++|.+.|++..+.  .|+. ..+..+-.
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~  300 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQ  300 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            999999999886411  46778999999999999999999999998853  4543 33444433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.32  E-value=1.8e-10  Score=109.30  Aligned_cols=191  Identities=12%  Similarity=-0.039  Sum_probs=126.2

Q ss_pred             hhhHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHCCCCCChhh
Q 039177          206 MVDYTNVIRSLVKKE---KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQ----EDYVKAEELFDELLVLGLVPDVYT  278 (453)
Q Consensus       206 ~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----g~~~~a~~~~~~m~~~g~~~~~~~  278 (453)
                      ...+..|...|.+.|   +.++|++.|++..+.|.. +...+..+...|...    +++++|..+|+... .   -+...
T Consensus       176 ~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a  250 (452)
T 3e4b_A          176 DICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPAS  250 (452)
T ss_dssp             TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHH
T ss_pred             HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHH
Confidence            346777777777777   777788888777777644 444445566666544    57778888877766 3   34455


Q ss_pred             HHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCcCHHHHH
Q 039177          279 YNVYING-L--CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR-----ELNRLRELVKEMKWKGIVLNLQTYS  350 (453)
Q Consensus       279 ~~~li~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~p~~~~~~  350 (453)
                      +..+... |  ...++.++|.+.|+...+.|   +...+..|...|. .|     ++++|...|+... .|   +...+.
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~  322 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADY  322 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHH
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHH
Confidence            5555555 3  45777888888888777755   5666666666666 44     7788888887766 32   566667


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHHHHHHhhCCC
Q 039177          351 IMIDGLAS----KGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALELLKQMADKDV  412 (453)
Q Consensus       351 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~  412 (453)
                      .|...|..    ..+.++|...|++..+.|.   ......|...|..    ..+.++|..+|+...+.|.
T Consensus       323 ~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          323 YLGQIYRRGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            77776665    3377888888887777662   3334445555543    3477888888888777664

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.32  E-value=3.1e-10  Score=93.15  Aligned_cols=165  Identities=16%  Similarity=0.069  Sum_probs=143.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 039177          241 IVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA  320 (453)
Q Consensus       241 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  320 (453)
                      ...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.. ..+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4567778888999999999999999887653 3467788889999999999999999999998864 2367788999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHH
Q 039177          321 LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKA  400 (453)
Q Consensus       321 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  400 (453)
                      |...|++++|...++.+.+.... +...+..+...|...|++++|...++++.+.. ..+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANPI-NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999887544 77889999999999999999999999998875 44567888899999999999999


Q ss_pred             HHHHHHHhh
Q 039177          401 LELLKQMAD  409 (453)
Q Consensus       401 ~~~~~~m~~  409 (453)
                      ...+++..+
T Consensus       164 ~~~~~~~~~  172 (186)
T 3as5_A          164 LPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.30  E-value=1.8e-10  Score=114.64  Aligned_cols=166  Identities=8%  Similarity=-0.039  Sum_probs=128.5

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      +..+|+.|...|.+.|++++|++.|++..+.... +..+|..+..+|.+.|++++|++.|++.++.. +-+...|..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4566888888888888888888888888776443 67778888888888888888888888887754 234667888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      +|.+.|++++|.+.|++..+... -+...|+.+..+|.+.|++++|+..|++.++.... +...+..+..+|...|++++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHH
Confidence            88888888888888888877532 14567888888888888888888888888877555 67788888888888888888


Q ss_pred             HHHHHHHHHH
Q 039177          365 ACGLLEEALN  374 (453)
Q Consensus       365 A~~~~~~m~~  374 (453)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8887776654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.29  E-value=1.1e-09  Score=103.92  Aligned_cols=305  Identities=8%  Similarity=0.014  Sum_probs=188.2

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCCh---hHHHHHHhhcccCC-------------C--
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRF---QDSVNLFYKIPKFR-------------I--  147 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~-------------~--  147 (453)
                      +...+.+.|++++|.++|+...+. |. +  ..+..|...|...|+.   ++|...|++..+.+             .  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~-g~-~--~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~   84 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAEL-GY-S--EAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPG   84 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-TC-C--TGGGTCC----------------------------CHHHHHHHHHTC--
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHC-CC-H--HHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCC
Confidence            344455566666777777666655 21 2  2334455555555665   66666665543322             1  


Q ss_pred             ---CcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCCh-HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChh
Q 039177          148 ---NRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSS-DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVF  223 (453)
Q Consensus       148 ---~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  223 (453)
                         ++.++|+..|+.....|.   ...+..|...|...+.... ..+.+.+......|   +...+..|...|...+.++
T Consensus        85 ~~~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           85 ATEAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGG
T ss_pred             CCCcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcc
Confidence               356677777777777653   2356666666665554311 34555555555544   4567778888888888666


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc----CCHHHHH
Q 039177          224 DALGILNQMKSDGIKPDIVCYTMVLNGVIVQE---DYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ----NNVEAGI  296 (453)
Q Consensus       224 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g---~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~----~~~~~a~  296 (453)
                      ++......+.+.-...+...+..|...|...|   +.++|+..|+...+.| .++...+..+...|...    ++.++|.
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            55555433333212224447788888888888   8889999999988877 34555545666666554    6899999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC-----CHHHHHHH
Q 039177          297 KMIACMEELGSKPDVITYNTLLQA-L--CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG-----DIIEACGL  368 (453)
Q Consensus       297 ~~~~~m~~~~~~p~~~~~~~li~~-~--~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~~~  368 (453)
                      +.|+... .|   +...+..|... |  ...+++++|...|+...+.|   +...+..|...|. .|     ++++|...
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            9998887 33   45566666665 3  46889999999999988876   6777788888887 55     89999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHHHHHHhhCCCC
Q 039177          369 LEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       369 ~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~  413 (453)
                      |++.. .|   +...+..|...|..    ..++++|..+|++..+.|..
T Consensus       310 ~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~  354 (452)
T 3e4b_A          310 FEKAV-GR---EVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQN  354 (452)
T ss_dssp             HHTTT-TT---CHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCT
T ss_pred             HHHHh-CC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChH
Confidence            98876 33   45556666666655    33899999999998877653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.28  E-value=3.8e-09  Score=97.56  Aligned_cols=274  Identities=9%  Similarity=-0.047  Sum_probs=184.6

Q ss_pred             HHHHHHHhcCCcchHHHHHHHHHHcCCCCCCH----HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHH
Q 039177           85 FVIKTLAENSQFCDISSVLDHIEKRENFETPE----FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCM  160 (453)
Q Consensus        85 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m  160 (453)
                      .....+...|+++.|...++....... ..+.    .+++.+...|...|++++|...+++.           +.+... 
T Consensus        19 ~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a-----------l~~~~~-   85 (373)
T 1hz4_A           19 LRAQVAINDGNPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQT-----------EQMARQ-   85 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH-----------HHHHHH-
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHH-----------HHHHHh-
Confidence            344566679999999999999887632 2222    25667778888999999999988773           333222 


Q ss_pred             HHCCCc-cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc----CCC--c-ChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 039177          161 INDGFC-VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL----GFC--F-GMVDYTNVIRSLVKKEKVFDALGILNQM  232 (453)
Q Consensus       161 ~~~~~~-p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~----g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m  232 (453)
                        .|.. ....++..+...+...|++  ++|...+++..+.    +..  | ....+..+...+...|++++|...+++.
T Consensus        86 --~~~~~~~~~~~~~la~~~~~~G~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  161 (373)
T 1hz4_A           86 --HDVWHYALWSLIQQSEILFAQGFL--QTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSG  161 (373)
T ss_dssp             --TTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --cCcHHHHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence              2211 1123456677778888988  8999888877653    221  2 2345667888889999999999999888


Q ss_pred             HhCCCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHH-----HHHHHHHhcCCHHHHHHHHHHH
Q 039177          233 KSDGIK----PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDV-YTYN-----VYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       233 ~~~~~~----~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~-----~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ......    ....++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...++..
T Consensus       162 l~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a  241 (373)
T 1hz4_A          162 IEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT  241 (373)
T ss_dssp             HHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            753221    12356777788888899999999999887653211211 1221     2334477889999999988887


Q ss_pred             HHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          303 EELGSKP---DVITYNTLLQALCKVRELNRLRELVKEMKWK----GIVLNL-QTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       303 ~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      ......+   ....+..+...+...|++++|...++.....    |..++. .++..+..++...|+.++|...+++...
T Consensus       242 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          242 AKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             CCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6543211   1235667778888889999998888877553    222222 2566667778888888888888887765


Q ss_pred             C
Q 039177          375 K  375 (453)
Q Consensus       375 ~  375 (453)
                      .
T Consensus       322 ~  322 (373)
T 1hz4_A          322 L  322 (373)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.28  E-value=3.4e-09  Score=97.87  Aligned_cols=271  Identities=9%  Similarity=-0.042  Sum_probs=189.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh----HhHHHHHHHHHhcCCCChHHHHHHH
Q 039177          119 FIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG----KTCSLILSSVCEQRDLSSDELLGFV  194 (453)
Q Consensus       119 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~~~a~~~~  194 (453)
                      .......+...|++++|...+++.                  ....-..+.    .+++.+...+...|++  ++|...+
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~a------------------l~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~   76 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLA------------------LEELPPGWFYSRIVATSVLGEVLHCKGEL--TRSLALM   76 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH------------------HHTCCTTCHHHHHHHHHHHHHHHHHHTCH--HHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHH------------------HHcCCCCchhHHHHHHHHHHHHHHhcCcH--HHHHHHH
Confidence            344455666788888888877763                  222111122    2456666778889998  9999999


Q ss_pred             HHHHHc----CCC-cChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhcCCHHHHHH
Q 039177          195 QEMKKL----GFC-FGMVDYTNVIRSLVKKEKVFDALGILNQMKSD----GIK--P-DIVCYTMVLNGVIVQEDYVKAEE  262 (453)
Q Consensus       195 ~~~~~~----g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll~~~~~~g~~~~a~~  262 (453)
                      ++....    |.. ....++..+...+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|..
T Consensus        77 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  156 (373)
T 1hz4_A           77 QQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEA  156 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            887653    211 01233677888999999999999999988753    221  2 24466678888999999999999


Q ss_pred             HHHHHHHCCCC--C--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHH----HHHHHHHhcCCHHHHHH
Q 039177          263 LFDELLVLGLV--P--DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD--VITYN----TLLQALCKVRELNRLRE  332 (453)
Q Consensus       263 ~~~~m~~~g~~--~--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~----~li~~~~~~~~~~~a~~  332 (453)
                      .+++.......  +  ...++..+...+...|++++|...+++.......++  .....    ..+..+...|++++|..
T Consensus       157 ~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  236 (373)
T 1hz4_A          157 SARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAAN  236 (373)
T ss_dssp             HHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHH
Confidence            99998764321  1  234577788889999999999999998875321111  22111    23345789999999999


Q ss_pred             HHHHHHHCCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCh-hhHHHHHHHHHhCCCHHHHHHHH
Q 039177          333 LVKEMKWKGIVL---NLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQS-SMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       333 ~~~~~~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~~-~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                      .+.........+   ....+..+...+...|++++|...+++....    +..++. ..+..+..++...|+.++|...+
T Consensus       237 ~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l  316 (373)
T 1hz4_A          237 WLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVL  316 (373)
T ss_dssp             HHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            999887653321   2335677888999999999999999987653    222222 25666678889999999999999


Q ss_pred             HHHhh
Q 039177          405 KQMAD  409 (453)
Q Consensus       405 ~~m~~  409 (453)
                      ++...
T Consensus       317 ~~al~  321 (373)
T 1hz4_A          317 LDALK  321 (373)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            98764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.28  E-value=3.6e-10  Score=104.95  Aligned_cols=235  Identities=7%  Similarity=-0.055  Sum_probs=173.1

Q ss_pred             HHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Q 039177          122 LIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL  200 (453)
Q Consensus       122 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~  200 (453)
                      ....+...|++++|+..|++....           +   ...+-.+ ...++..+...+...|+.  +.|...+.+..+.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~-----------~---~~~~~~~~~a~~~~~lg~~~~~~~~~--~~A~~~~~~al~~  172 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESK-----------L---IFVKDRIEKAEFFFKMSESYYYMKQT--YFSMDYARQAYEI  172 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT-----------G---GGCCCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH-----------H---hhCCCHHHHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHH
Confidence            556677889999999888774321           1   1111122 345788888999999999  9999999887764


Q ss_pred             C--C----CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCC----C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          201 G--F----CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGI----K-PDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       201 g--~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      -  .    +....+++.+...|...|++++|++.|++..+...    . ....++..+..+|...|++++|...+++..+
T Consensus       173 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  252 (383)
T 3ulq_A          173 YKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIA  252 (383)
T ss_dssp             HHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1  1    11245688999999999999999999998875311    1 1224788899999999999999999999876


Q ss_pred             C----CC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHH
Q 039177          270 L----GL-VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG----SKPDVITYNTLLQALCKVRE---LNRLRELVKEM  337 (453)
Q Consensus       270 ~----g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~~  337 (453)
                      .    +. .....++..+...|.+.|++++|...+++..+..    -......+..+...|...|+   +++|..+++..
T Consensus       253 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          253 VFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            2    22 3345678889999999999999999999877531    11112346677888889998   77777777655


Q ss_pred             HHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          338 KWKGIVL-NLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       338 ~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                         +..| ....+..+...|...|++++|...+++..+.
T Consensus       333 ---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          333 ---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             ---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence               3333 3346778999999999999999999988653

>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=99.26  E-value=4.6e-10  Score=111.76  Aligned_cols=165  Identities=12%  Similarity=-0.011  Sum_probs=147.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTLL  318 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li  318 (453)
                      +..+|+.+...|.+.|++++|++.|++.++.. +-+..++..+..+|.+.|++++|.+.|++..+..  | +...|..+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~--P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS--PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            56789999999999999999999999998854 2357889999999999999999999999999854  4 467999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHH
Q 039177          319 QALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVR  398 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  398 (453)
                      .+|.+.|++++|++.|++.++.... +...|..+..+|...|++++|++.|++..+.. .-+...+..+...|...|+++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHH
Confidence            9999999999999999999998665 78899999999999999999999999998875 335677899999999999999


Q ss_pred             HHHHHHHHHhh
Q 039177          399 KALELLKQMAD  409 (453)
Q Consensus       399 ~A~~~~~~m~~  409 (453)
                      +|.+.+++..+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998888763

>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=99.25  E-value=8.9e-11  Score=103.63  Aligned_cols=236  Identities=11%  Similarity=-0.059  Sum_probs=167.1

Q ss_pred             HHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----
Q 039177          126 YADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----  200 (453)
Q Consensus       126 ~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----  200 (453)
                      ....|++++|+..|++           |++++........+....++..+...+...|++  ++|...+++..+.     
T Consensus        11 ~~~~~~~~~A~~~~~~-----------al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~~~~~   77 (283)
T 3edt_B           11 SSGLVPRGSAVPLCKQ-----------ALEDLEKTSGHDHPDVATMLNILALVYRDQNKY--KEAAHLLNDALAIREKTL   77 (283)
T ss_dssp             --CCSCSSSHHHHHHH-----------HHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHT
T ss_pred             cCCCCCHHHHHHHHHH-----------HHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccH--HHHHHHHHHHHHHHHHHc
Confidence            3567888888888876           777777776544344567888999999999999  9999999988765     


Q ss_pred             -C-CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-
Q 039177          201 -G-FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD------G-IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL-  270 (453)
Q Consensus       201 -g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~-~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-  270 (453)
                       + .+....++..+...|...|++++|++.|++..+.      . .+....++..+...|...|++++|...+++..+. 
T Consensus        78 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  157 (283)
T 3edt_B           78 GKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIY  157 (283)
T ss_dssp             CTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence             2 1334567899999999999999999999998764      1 1234678888999999999999999999998764 


Q ss_pred             -----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCCCH-HHHHHHHHHHHhcCCHH------HH
Q 039177          271 -----GLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEEL-------GSKPDV-ITYNTLLQALCKVRELN------RL  330 (453)
Q Consensus       271 -----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~-~~~~~li~~~~~~~~~~------~a  330 (453)
                           +..| ...++..+...|...|++++|...+++..+.       ...+.. ..+..+...+...+...      .+
T Consensus       158 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  237 (283)
T 3edt_B          158 ATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEY  237 (283)
T ss_dssp             HHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC-------
T ss_pred             HHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHH
Confidence                 1122 3567888899999999999999999988763       112222 23333433443333322      22


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          331 RELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       331 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+...... ......++..+...|...|++++|..+|++..+.
T Consensus       238 ~~~~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          238 GSWYKACKVD-SPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             -----CCCCC-CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2222221111 1224557888999999999999999999988653

>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=99.25  E-value=1.2e-10  Score=102.79  Aligned_cols=226  Identities=12%  Similarity=-0.042  Sum_probs=154.3

Q ss_pred             hcCCCChHHHHHHHHHHHH-------cCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC------CC-CCCHHHHHH
Q 039177          181 EQRDLSSDELLGFVQEMKK-------LGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD------GI-KPDIVCYTM  246 (453)
Q Consensus       181 ~~~~~~~~~a~~~~~~~~~-------~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~-~~~~~~~~~  246 (453)
                      ..|++  ++|...+++..+       ...+....++..+...|...|++++|+..+++..+.      +- +....++..
T Consensus        13 ~~~~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~   90 (283)
T 3edt_B           13 GLVPR--GSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNN   90 (283)
T ss_dssp             CCSCS--SSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHH
T ss_pred             CCCCH--HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHH
Confidence            44555  556666655544       232345677899999999999999999999998754      21 224567888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC------C-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCC-CHH
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVL------G-LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL------GSKP-DVI  312 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~------g-~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~  312 (453)
                      +...|...|++++|...+.+..+.      . ......++..+...|...|++++|...+++..+.      +-.| ...
T Consensus        91 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           91 LAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999988764      1 1223567788888999999999999999988764      1123 245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCc-CHHHHHHHHHHHHhcCCHHHHHH------HHHHHHHCCCC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWK-------GIVL-NLQTYSIMIDGLASKGDIIEACG------LLEEALNKGLC  378 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p-~~~~~~~li~~~~~~g~~~~A~~------~~~~m~~~~~~  378 (453)
                      ++..+...|...|++++|..+++++.+.       ...+ ....|..+...+...+....+..      .++.... ...
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  249 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSP  249 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCH
Confidence            7888899999999999999999988763       1111 22334444444443333332222      2221110 112


Q ss_pred             CChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          379 TQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       379 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ....++..+...|...|++++|..++++..+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2234678888999999999999999998874

>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=99.23  E-value=1.2e-09  Score=93.34  Aligned_cols=206  Identities=12%  Similarity=0.008  Sum_probs=155.4

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI  283 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  283 (453)
                      .|...+......+.+.|++++|++.|++..+....++...+..+..++...|++++|+..|+...+.. +.+...+..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45678889999999999999999999999987654677888889999999999999999999998864 23567788899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHH
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPDV-------ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN---LQTYSIMI  353 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~li  353 (453)
                      ..|...|++++|...++...+.... +.       ..|..+...+...|++++|...|+...+.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999885421 34       45777888889999999999999999886  343   45677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          354 DGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       354 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      .+|...|     ..+++++...+ ..+...|....  ....+.+++|+..+++..+  +.|+......++
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~--l~p~~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT--LSPNRTEIKQMQ  220 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            7776544     34455555443 22334444333  3345678999999999884  456654444333

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.20  E-value=5.5e-09  Score=96.70  Aligned_cols=222  Identities=9%  Similarity=-0.057  Sum_probs=166.1

Q ss_pred             CCcHHHHHHHHHHHHHCCC-cc----ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC-----CCc-ChhhHHHHHHH
Q 039177          147 INRVGFAIEILNCMINDGF-CV----DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLG-----FCF-GMVDYTNVIRS  215 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~-~p----~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g-----~~~-~~~~~~~li~~  215 (453)
                      .|++++|+..|+....... .+    ...++..+...+...|+.  +.|...+.+..+..     ..+ ...+++.+...
T Consensus       114 ~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~  191 (378)
T 3q15_A          114 QKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQT--HVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGN  191 (378)
T ss_dssp             TTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHH
T ss_pred             HCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCc--HHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHH
Confidence            6778888888887775311 12    235788888899999998  99999988876541     111 24568899999


Q ss_pred             HHhcCChhHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCChhhHHHHHHH
Q 039177          216 LVKKEKVFDALGILNQMKSD----GIK-PDIVCYTMVLNGVIVQEDYVKAEELFDELLV-----LGLVPDVYTYNVYING  285 (453)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g~~~~~~~~~~li~~  285 (453)
                      |...|++++|++.|++..+.    +.. ....++..+..+|...|++++|...+++..+     .. +....++..+...
T Consensus       192 y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~  270 (378)
T 3q15_A          192 YDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHH
Confidence            99999999999999988752    111 1235778888999999999999999999876     33 2336678888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCC---CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcC-HHHHHHHHHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGS---KPD-VITYNTLLQALCKVRE---LNRLRELVKEMKWKGIVLN-LQTYSIMIDGLA  357 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~---~p~-~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~-~~~~~~li~~~~  357 (453)
                      |.+.|++++|...++...+...   .+. ...+..+...|...++   +.+|...++.   .+..++ ...+..+...|.
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHH
Confidence            9999999999999999886421   122 3456667777778888   7777777765   333222 346678899999


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 039177          358 SKGDIIEACGLLEEALN  374 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~  374 (453)
                      ..|++++|...|++..+
T Consensus       348 ~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999998764

>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=99.18  E-value=7.9e-08  Score=94.66  Aligned_cols=377  Identities=10%  Similarity=0.019  Sum_probs=232.2

Q ss_pred             cchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCC---hhHHHH
Q 039177           61 PHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHR---FQDSVN  137 (453)
Q Consensus        61 ~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~  137 (453)
                      .+.+..+-+.+..  -+-|...|..++..+.+.+.++.+..+|+.+...  +|.....|...+..-.+.|.   ++.+..
T Consensus        49 ~d~i~~lE~~l~~--np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~  124 (679)
T 4e6h_A           49 SDVIGKLNDMIEE--QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEP  124 (679)
T ss_dssp             SCHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHH
T ss_pred             HHHHHHHHHHHHH--CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHH
Confidence            3344444333333  2468899999999999999999999999999987  57788899999999999998   999999


Q ss_pred             HHhhcccCC------------------CCc--------HHHHHHHHHHHHH-CCC-ccC-hHhHHHHHHHHHh-------
Q 039177          138 LFYKIPKFR------------------INR--------VGFAIEILNCMIN-DGF-CVD-GKTCSLILSSVCE-------  181 (453)
Q Consensus       138 ~~~~~~~~~------------------~~~--------~~~a~~~~~~m~~-~~~-~p~-~~~~~~ll~~~~~-------  181 (453)
                      +|++.....                  .+.        .+...++|+..+. .|. .++ ...|...+.....       
T Consensus       125 lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~  204 (679)
T 4e6h_A          125 VLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKF  204 (679)
T ss_dssp             HHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcH
Confidence            999865532                  111        1233466666554 465 554 4567666654432       


Q ss_pred             --cCCCChHHHHHHHHHHHHcCCCcChhhHH---HHHHHHH----------hcCChhHH---------------------
Q 039177          182 --QRDLSSDELLGFVQEMKKLGFCFGMVDYT---NVIRSLV----------KKEKVFDA---------------------  225 (453)
Q Consensus       182 --~~~~~~~~a~~~~~~~~~~g~~~~~~~~~---~li~~~~----------~~g~~~~a---------------------  225 (453)
                        .++.  +.+..+|+.........-..+|.   .....+.          ...+++.|                     
T Consensus       205 eeq~~~--~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~  282 (679)
T 4e6h_A          205 EEQQRV--QYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPIT  282 (679)
T ss_dssp             HHHHHH--HHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSS
T ss_pred             HHHhHH--HHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccc
Confidence              1223  55666776666421110111121   1110000          00011112                     


Q ss_pred             ----------------------------------------------HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          226 ----------------------------------------------LGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVK  259 (453)
Q Consensus       226 ----------------------------------------------~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  259 (453)
                                                                    ..+|++...... -+...|-..+.-+...|+.++
T Consensus       283 ~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p-~~~~lW~~ya~~~~~~~~~~~  361 (679)
T 4e6h_A          283 LNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVC-FAPEIWFNMANYQGEKNTDST  361 (679)
T ss_dssp             STTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHSCCTT
T ss_pred             cccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcC-CCHHHHHHHHHHHHhcCcHHH
Confidence                                                          223333332211 133444445555556788888


Q ss_pred             HH-HHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------CCCC------------HHHHHHH
Q 039177          260 AE-ELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG---------SKPD------------VITYNTL  317 (453)
Q Consensus       260 a~-~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~l  317 (453)
                      |. .+|+..... ++.+...|-..+....+.|+++.|.++|+.+.+..         ..|+            ..+|...
T Consensus       362 a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y  440 (679)
T 4e6h_A          362 VITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVY  440 (679)
T ss_dssp             HHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHH
Confidence            86 888888763 33456667778888888999999999999887631         0132            2367777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          318 LQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSIMIDGLASK-GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      +....+.|+++.|..+|....+. +.. ....|...+..-.+. ++.+.|.++|+...+. ..-+...+...+......|
T Consensus       441 ~~~erR~~~l~~AR~vf~~A~~~~~~~-~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~  518 (679)
T 4e6h_A          441 MNTMKRIQGLAASRKIFGKCRRLKKLV-TPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVN  518 (679)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHTGGGS-CTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCC
Confidence            88888889999999999999876 222 333444333333444 4589999999988876 3335555667777777889


Q ss_pred             CHHHHHHHHHHHhhCCCCC--CHHHHHHHHhc--hhcchhhHHHHHHHHHHhhhcC
Q 039177          396 LVRKALELLKQMADKDVSP--GARVWEALLLS--SVSKLDFVNTSFIRLVDQILNT  447 (453)
Q Consensus       396 ~~~~A~~~~~~m~~~~~~p--~~~~~~~ll~a--~~~~~~~~~~~~~~~~~~~~~~  447 (453)
                      +.+.|..+|++.....-.+  ....|...+.-  -.+..+.+.....++.+..+++
T Consensus       519 ~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          519 EESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             CHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             CHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999988653222  22344444432  2344444555566766666554

>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=99.18  E-value=6.7e-09  Score=88.66  Aligned_cols=196  Identities=10%  Similarity=-0.038  Sum_probs=155.0

Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM  246 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  246 (453)
                      .|+..+......+...|++  ++|...|+...+...+++...+..+..++...|++++|++.|++..+.... +...|..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~--~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~   81 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNY--AVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIG   81 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCH--HHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHH
Confidence            4667888889999999999  999999999998874367788888999999999999999999999987554 6788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-------hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHH
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDV-------YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD---VITYNT  316 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~-------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~  316 (453)
                      +..++...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|.+.|+...+.  .|+   ...+..
T Consensus        82 l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~  158 (228)
T 4i17_A           82 KSAAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYS  158 (228)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHH
Confidence            9999999999999999999998854 2234       45777888899999999999999999985  465   356777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      +..+|...     +..+++.+...+.. +...|.....  ...+.+++|...|++..+..
T Consensus       159 l~~~~~~~-----~~~~~~~a~~~~~~-~~~~~~~~~~--~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          159 LGVLFYNN-----GADVLRKATPLASS-NKEKYASEKA--KADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHHH-----HHHHHHHHGGGTTT-CHHHHHHHHH--HHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHH-----HHHHHHHHHhcccC-CHHHHHHHHH--HHHHHHHHHHHHHHHHhhcC
Confidence            77777544     44455555555333 4455544443  34567899999999998764

>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=99.14  E-value=1.9e-07  Score=91.93  Aligned_cols=360  Identities=12%  Similarity=0.043  Sum_probs=242.2

Q ss_pred             cchHHHHHHHhhhcC-CCCChhhHHHHHHHHHhcCCc--------chHHHHHHHHHHcCCC-CC-CHHHHHHHHHHHHh-
Q 039177           61 PHILSSLLHSFSIYN-CEPPPEAYHFVIKTLAENSQF--------CDISSVLDHIEKRENF-ET-PEFIFIDLIKTYAD-  128 (453)
Q Consensus        61 ~~~~~~ll~~~~~~~-~~p~~~~~~~ll~~~~~~~~~--------~~a~~~~~~~~~~~~~-~~-~~~~~~~li~~~~~-  128 (453)
                      ...+..+++.+.... .+|++..|...+.-..+.++.        +.+.++|+.....-|. .+ +..+|...+..... 
T Consensus       119 ~~~v~~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~  198 (679)
T 4e6h_A          119 AAVIEPVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHW  198 (679)
T ss_dssp             HHHHHHHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhc
Confidence            566677776664433 358888998888777666654        3345788887776565 44 45789888877543 


Q ss_pred             --------cCChhHHHHHHhhcccCCCCcHHH------------------------------HHHHHHHHHH--CCCc--
Q 039177          129 --------AHRFQDSVNLFYKIPKFRINRVGF------------------------------AIEILNCMIN--DGFC--  166 (453)
Q Consensus       129 --------~g~~~~A~~~~~~~~~~~~~~~~~------------------------------a~~~~~~m~~--~~~~--  166 (453)
                              .++++.++.+|++.........+.                              |...+.++..  .++.  
T Consensus       199 ~~~~~~eeq~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~  278 (679)
T 4e6h_A          199 KPVNKFEEQQRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRN  278 (679)
T ss_dssp             CCCSHHHHHHHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cccCcHHHHhHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhc
Confidence                    445788999999877654222222                              2222222211  1110  


Q ss_pred             -cC--------------------hHhHHHHHHHHHhcCC-CC----hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC
Q 039177          167 -VD--------------------GKTCSLILSSVCEQRD-LS----SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE  220 (453)
Q Consensus       167 -p~--------------------~~~~~~ll~~~~~~~~-~~----~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  220 (453)
                       |.                    ...|...+.---..+. ++    .+.+..+|+++...- +-....|-..+..+.+.|
T Consensus       279 ~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~  357 (679)
T 4e6h_A          279 LPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKN  357 (679)
T ss_dssp             CCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHS
T ss_pred             cccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcC
Confidence             00                    0233344432222110 10    123455677766653 456778888888888999


Q ss_pred             ChhHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---------CCCC------------hhh
Q 039177          221 KVFDAL-GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG---------LVPD------------VYT  278 (453)
Q Consensus       221 ~~~~a~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g---------~~~~------------~~~  278 (453)
                      +.++|. ++|++.... ++.+...|-..+...-+.|+++.|.++|+.+++..         ..|+            ...
T Consensus       358 ~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~v  436 (679)
T 4e6h_A          358 TDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYV  436 (679)
T ss_dssp             CCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHH
Confidence            999997 999999874 33466677788888899999999999999987631         0132            346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEEL-GSKPDVITYNTLLQALCKV-RELNRLRELVKEMKWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~  356 (453)
                      |...+....+.|..+.|..+|....+. +. .....|...+..-.+. ++.+.|..+|+..++.-. -+...|...++..
T Consensus       437 Wi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p-~~~~~w~~y~~fe  514 (679)
T 4e6h_A          437 YCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA-TDGEYINKYLDFL  514 (679)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC-CchHHHHHHHHHH
Confidence            888888888899999999999999875 21 1233343333333344 459999999999998732 2667778888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch
Q 039177          357 ASKGDIIEACGLLEEALNKGLCT--QSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSS  426 (453)
Q Consensus       357 ~~~g~~~~A~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~  426 (453)
                      ...|+.+.|..+|+........+  ....|...+..-.+.|+.+.+.++.+++.+.  .|+......+..=|
T Consensus       515 ~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          515 IYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            88999999999999998764321  3457888888888999999999999999864  45555555555444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.10  E-value=3.7e-09  Score=94.08  Aligned_cols=200  Identities=7%  Similarity=-0.053  Sum_probs=138.6

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CC--ChhhHHHH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSD----GIKPD-IVCYTMVLNGVIVQEDYVKAEELFDELLVLGL---VP--DVYTYNVY  282 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~---~~--~~~~~~~l  282 (453)
                      ...|...|++++|.+.|++..+.    |-.++ ..+|+.+..+|...|++++|+..|++.++...   .+  -..+++.+
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  123 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            44677788888888888777642    21111 45778888888888888888888887755210   01  13467778


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCH------HHHH
Q 039177          283 INGLCKQ-NNVEAGIKMIACMEELGSK-PD----VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNL------QTYS  350 (453)
Q Consensus       283 i~~~~~~-~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~------~~~~  350 (453)
                      ..+|... |++++|...|++..+.... .+    ..++..+...|.+.|++++|...|+...+.......      ..|.
T Consensus       124 g~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHH
Confidence            8888886 9999999999887763211 01    346888899999999999999999999887543222      2577


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh------hhHHHHHHHHH--hCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          351 IMIDGLASKGDIIEACGLLEEALNKGLCTQS------SMFDETICGLC--QRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       351 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~------~~~~~li~~~~--~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      .+..++...|++++|...|++..+.  .|+.      ..+..++.+|.  ..+++++|+..|+++.  .+.|+.
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~--~l~~~~  273 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM--RLDKWK  273 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS--CCCHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC--ccHHHH
Confidence            7888899999999999999988653  2221      12444555664  4567888888887765  344433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.08  E-value=1.3e-08  Score=78.43  Aligned_cols=126  Identities=15%  Similarity=0.100  Sum_probs=58.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ..+...+...|++++|..+++.+.+... .+...+..+...+...|++++|..+++.+.+.+.. +...+..+...+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCC-chHHHHHHHHHHHHh
Confidence            3344444444444444444444443321 13334444444444455555555555544443322 344444455555555


Q ss_pred             CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          360 GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       360 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      |++++|.+.++++.+.. ..+...+..+...+.+.|++++|...++++.
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            55555555555554432 1233344445555555555555555555544

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.08  E-value=5.2e-08  Score=85.42  Aligned_cols=185  Identities=14%  Similarity=0.037  Sum_probs=134.1

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          225 ALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-VPDVYTYNVYINGLCKQNNVEAGIKMIACME  303 (453)
Q Consensus       225 a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  303 (453)
                      |+..|+++.+.+ .++..++..+..++...|++++|++++.+.+..+. .-+...+..++..+.+.|+.+.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            778888887665 34566666888889999999999999998877553 2356777888899999999999999999998


Q ss_pred             HCCCCC-----CHHHHHHHHHHHH--hcC--CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          304 ELGSKP-----DVITYNTLLQALC--KVR--ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       304 ~~~~~p-----~~~~~~~li~~~~--~~~--~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +.  .|     +..+...|..++.  ..|  ++.+|..+|+++.+..  |+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~--p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTF--PTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTS--CSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhC--CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            74  45     3566666666633  234  8999999999987663  4433334445588899999999999987655


Q ss_pred             CC-----C----CCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHH
Q 039177          375 KG-----L----CTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       375 ~~-----~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      ..     .    .-+..+...+|......|+  +|.++++++.+  ..|+...
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp~  288 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHAF  288 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCChH
Confidence            31     0    2345556456666666776  88899999884  4566543

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.07  E-value=1.7e-08  Score=77.63  Aligned_cols=128  Identities=19%  Similarity=0.154  Sum_probs=64.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK  323 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  323 (453)
                      |..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++.+.+.+. .+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHHH
Confidence            3344444444455555555555444432 12334444444455555555555555555544321 234445555555555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          324 VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       324 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .|++++|..+++.+.+.... +...+..+...|...|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            55555555555555554322 344555555556666666666666655544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.01  E-value=2.3e-08  Score=87.27  Aligned_cols=168  Identities=8%  Similarity=-0.051  Sum_probs=90.1

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-C-CChhhH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPD---IVCYTMVLNGVIVQEDYVKAEELFDELLVLGL-V-PDVYTY  279 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~-~~~~~~  279 (453)
                      +...+..+...+.+.|++++|+..|+++.+..+. +   ...+..+..+|.+.|++++|+..|+..++... . .....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            3445555566666666666666666666654322 2   44555566666666666666666666665321 0 112334


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHHCCCCCCH-HH-----------------HHHHHHHHHhcCCHHHHHHH
Q 039177          280 NVYINGLCK--------QNNVEAGIKMIACMEELGSKPDV-IT-----------------YNTLLQALCKVRELNRLREL  333 (453)
Q Consensus       280 ~~li~~~~~--------~~~~~~a~~~~~~m~~~~~~p~~-~~-----------------~~~li~~~~~~~~~~~a~~~  333 (453)
                      ..+..++..        .|++++|...|+.+.+..  |+. ..                 +..+...|.+.|++++|...
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            445555555        666666666666666532  221 11                 13344555566666666666


Q ss_pred             HHHHHHCCCCc--CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHC
Q 039177          334 VKEMKWKGIVL--NLQTYSIMIDGLASK----------GDIIEACGLLEEALNK  375 (453)
Q Consensus       334 ~~~~~~~~~~p--~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~  375 (453)
                      |+.+++..+..  ....+..+..+|...          |++++|...|+++.+.
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            66655542221  223445555555544          5556666666655554

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.01  E-value=2.3e-08  Score=88.96  Aligned_cols=166  Identities=8%  Similarity=-0.015  Sum_probs=81.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCC-C----
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSD----GIKP-DIVCYTMVLNGVIVQ-EDYVKAEELFDELLVLGLVP-D----  275 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~-g~~~~a~~~~~~m~~~g~~~-~----  275 (453)
                      .+|+.+..+|.+.|++++|+..|++..+.    |-.. -..++..+...|... |++++|+..|++.++..... +    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            34455555555555555555555544432    1000 023455555556654 66666666666554321000 0    


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-C---
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV------ITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-N---  345 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~---  345 (453)
                      ..++..+...|.+.|++++|...|+...+.......      ..|..+..++...|++++|...|+...+..... +   
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~  237 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRE  237 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            234555666666666666666666666653322111      144555566666666666666666655432110 1   


Q ss_pred             HHHHHHHHHHHH--hcCCHHHHHHHHHHH
Q 039177          346 LQTYSIMIDGLA--SKGDIIEACGLLEEA  372 (453)
Q Consensus       346 ~~~~~~li~~~~--~~g~~~~A~~~~~~m  372 (453)
                      ...+..++.+|.  ..+++++|+..|+.+
T Consensus       238 ~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          238 SNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence            112334445553  345566666666554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.00  E-value=3.3e-08  Score=82.99  Aligned_cols=135  Identities=7%  Similarity=-0.115  Sum_probs=91.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG  360 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  360 (453)
                      .+..+|.+.|++++|...|+...+... -+...+..+..+|...|++++|...|+..++..+. +..+|..+...|...|
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHh
Confidence            367778888888888888888887542 25677888888888888888888888888887655 6777888877776555


Q ss_pred             C--HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHH
Q 039177          361 D--IIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEA  421 (453)
Q Consensus       361 ~--~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  421 (453)
                      +  ...+...++....  ..|....+.....++...|++++|+..|++..  .+.|+......
T Consensus       137 ~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al--~l~P~~~~~~~  195 (208)
T 3urz_A          137 EQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRYEKARNSLQKVI--LRFPSTEAQKT  195 (208)
T ss_dssp             HHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHT--TTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCHHHHHHHHHHHH--HhCCCHHHHHH
Confidence            3  3344555554432  12222233334555667788899999998888  56787654443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.96  E-value=1.3e-07  Score=82.82  Aligned_cols=221  Identities=5%  Similarity=-0.063  Sum_probs=149.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      -.-+.++|...|+++..         ....|....+..+.. |...+    |+..|++....+ .++..++..+..++..
T Consensus        48 ~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~  112 (310)
T 3mv2_B           48 LFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK----NIEELENLLKDK-QNSPYELYLLATAQAI  112 (310)
T ss_dssp             HHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            33455777777776642         122344434443333 33322    677888777655 4566666788889999


Q ss_pred             cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-----CHHHHHHHHHHH--HhcC
Q 039177          289 QNNVEAGIKMIACMEELGSK-PDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-----NLQTYSIMIDGL--ASKG  360 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-----~~~~~~~li~~~--~~~g  360 (453)
                      .|++++|++++...+..+.. -+...+..++..+.+.|+.+.|.+.++.|.+.  .|     +..+...|..++  ...|
T Consensus       113 ~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g  190 (310)
T 3mv2_B          113 LGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATN  190 (310)
T ss_dssp             HTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhC
Confidence            99999999999998776532 25668889999999999999999999999886  34     356666666663  3334


Q ss_pred             --CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC-----CC---CC-CHHHHHHHHhchhcc
Q 039177          361 --DIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADK-----DV---SP-GARVWEALLLSSVSK  429 (453)
Q Consensus       361 --~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~---~p-~~~~~~~ll~a~~~~  429 (453)
                        +..+|..+|+++.+.  .|+...-..++.++.+.|++++|.+.++.+.+.     ..   .| |..++..++......
T Consensus       191 ~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~l  268 (310)
T 3mv2_B          191 KETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQ  268 (310)
T ss_dssp             CSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHh
Confidence              899999999999765  344233344455899999999999999987642     11   24 455553554333334


Q ss_pred             hhhHHHHHHHHHHhhhcCC
Q 039177          430 LDFVNTSFIRLVDQILNTP  448 (453)
Q Consensus       430 ~~~~~~~~~~~~~~~~~~p  448 (453)
                      ++.+.+.+.++.+.-+++|
T Consensus       269 gk~a~~l~~qL~~~~P~hp  287 (310)
T 3mv2_B          269 GLDTEDLTNQLVKLDHEHA  287 (310)
T ss_dssp             TCTTHHHHHHHHHTTCCCH
T ss_pred             ChHHHHHHHHHHHhCCCCh
Confidence            4567777777766655544

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.95  E-value=2.2e-08  Score=99.90  Aligned_cols=173  Identities=10%  Similarity=-0.028  Sum_probs=131.5

Q ss_pred             HhcCChhHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          217 VKKEKVFDALGILNQMK--------SDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~--------~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      ...|++++|++.+++..        +.. +.+...+..+..++...|++++|+..|++..+.. +.+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67888999999998887        332 2256778888888888999999999998887754 3456778888888889


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH
Q 039177          289 QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGL  368 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  368 (453)
                      .|++++|...|++..+.... +...+..+..+|.+.|++++ ...|+...+.+.. +...|..+..+|.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTNDG-VISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999888875422 45678888888889999998 8889888887655 777888888899999999999999


Q ss_pred             HHHHHHCCCCCC-hhhHHHHHHHHHhCCC
Q 039177          369 LEEALNKGLCTQ-SSMFDETICGLCQRGL  396 (453)
Q Consensus       369 ~~~m~~~~~~~~-~~~~~~li~~~~~~g~  396 (453)
                      |++..+.+  |+ ...+..+..++...|+
T Consensus       557 ~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            98876543  43 4456666666655444

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.94  E-value=8.6e-07  Score=78.41  Aligned_cols=229  Identities=9%  Similarity=0.022  Sum_probs=178.1

Q ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC--ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH-
Q 039177          175 ILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE--KVFDALGILNQMKSDGIKPDIVCYTMVLNGV-  251 (453)
Q Consensus       175 ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~-  251 (453)
                      .+.+..+.+..+ ++|+++++.+.... +-+..+|+.--..+...|  +++++++.++.+....++ +..+|+.--..+ 
T Consensus        38 ~~~a~~~~~e~s-~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~  114 (306)
T 3dra_A           38 LLLALMKAEEYS-ERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIG  114 (306)
T ss_dssp             HHHHHHHTTCCS-HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCC-HHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHH
Confidence            334445556554 78999999998876 345566888888888888  999999999999987655 666676655555 


Q ss_pred             ---Hhc---CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 039177          252 ---IVQ---EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE--AGIKMIACMEELGSKPDVITYNTLLQALCK  323 (453)
Q Consensus       252 ---~~~---g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  323 (453)
                         ...   +++++++.+++.+.+.. +-+-.+|+.-.....+.|.++  ++++.++.+.+.... |...|+.-...+.+
T Consensus       115 ~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~  192 (306)
T 3dra_A          115 QIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFS  192 (306)
T ss_dssp             HHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHS
T ss_pred             HHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHh
Confidence               555   78999999999998865 457788888777788888887  999999999987643 77778777666777


Q ss_pred             cCC------HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--CCCChhhHHHHHHHHHhC
Q 039177          324 VRE------LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE-ACGLLEEALNKG--LCTQSSMFDETICGLCQR  394 (453)
Q Consensus       324 ~~~------~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~--~~~~~~~~~~li~~~~~~  394 (453)
                      .+.      ++++++.++.++...+. |...|+.+-..+.+.|+... +..+.+++.+.+  -..+...+..+...|.+.
T Consensus       193 l~~~~~~~~~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~  271 (306)
T 3dra_A          193 KKHLATDNTIDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQ  271 (306)
T ss_dssp             SGGGCCHHHHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHT
T ss_pred             ccccchhhhHHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHcc
Confidence            776      89999999999998777 89999999888888888544 555666655432  134566788888999999


Q ss_pred             CCHHHHHHHHHHHhh
Q 039177          395 GLVRKALELLKQMAD  409 (453)
Q Consensus       395 g~~~~A~~~~~~m~~  409 (453)
                      |+.++|.++++.+.+
T Consensus       272 ~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          272 KKYNESRTVYDLLKS  286 (306)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999999875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.93  E-value=6.3e-08  Score=81.31  Aligned_cols=166  Identities=11%  Similarity=0.013  Sum_probs=110.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHH----------------HHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 039177          211 NVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTM----------------VLNGVIVQEDYVKAEELFDELLVLGLVP  274 (453)
Q Consensus       211 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~----------------ll~~~~~~g~~~~a~~~~~~m~~~g~~~  274 (453)
                      .....+.+.|++++|+..|++..+..+. +...|..                +..+|.+.|++++|+..|++.++.. +.
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~   86 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PN   86 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CC
Confidence            3445556667777777777776654222 3344444                7788888899999999888888754 34


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHCCCCcCHHHHHHH
Q 039177          275 DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE--LNRLRELVKEMKWKGIVLNLQTYSIM  352 (453)
Q Consensus       275 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~p~~~~~~~l  352 (453)
                      +...+..+..+|...|++++|...|++..+... -+...+..+...|...|+  .+.+...+.....  ..|....+...
T Consensus        87 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~  163 (208)
T 3urz_A           87 NVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRD  163 (208)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHH
Confidence            677788888888889999999999988887542 246677777777765543  3344555544432  22333344445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhh
Q 039177          353 IDGLASKGDIIEACGLLEEALNKGLCTQSSM  383 (453)
Q Consensus       353 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  383 (453)
                      ..++...|++++|...|++..+.  .|+...
T Consensus       164 g~~~~~~~~~~~A~~~~~~al~l--~P~~~~  192 (208)
T 3urz_A          164 GLSKLFTTRYEKARNSLQKVILR--FPSTEA  192 (208)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHTTT--SCCHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHh--CCCHHH
Confidence            56667788899999999988764  466544

>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=98.92  E-value=2.5e-07  Score=77.87  Aligned_cols=176  Identities=14%  Similarity=-0.005  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHH
Q 039177          189 ELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE----DYVKAEELF  264 (453)
Q Consensus       189 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g----~~~~a~~~~  264 (453)
                      +|.+.|....+.|   +...+..|...|...+++++|++.|++..+.|   +...+..|...|.. +    ++++|..+|
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~   76 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLA   76 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHH
Confidence            4555666666654   55666667777777777777777777776654   45555566666655 5    677777777


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cCCHHHHHHHHH
Q 039177          265 DELLVLGLVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSK-PDVITYNTLLQALCK----VRELNRLRELVK  335 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~~~~~~a~~~~~  335 (453)
                      +...+.|   +...+..+-..|..    .+++++|.+.|+...+.|.. .+...+..|...|..    .+++++|...|+
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            7766643   45555556555655    56677777777766665421 014556666666666    566666666666


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHCC
Q 039177          336 EMKWKGIVLNLQTYSIMIDGLASK-G-----DIIEACGLLEEALNKG  376 (453)
Q Consensus       336 ~~~~~~~~p~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~  376 (453)
                      ...+.+  .+...+..|...|... |     +.++|...|++..+.|
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            666551  1333455555555442 2     5666666666666555

>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=98.91  E-value=2.2e-07  Score=78.13  Aligned_cols=179  Identities=14%  Similarity=0.035  Sum_probs=146.6

Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC----CHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQN----NVEAGIKM  298 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~----~~~~a~~~  298 (453)
                      .+|++.|++..+.|   +..++..+...|...+++++|+..|++..+.|   +...+..+-..|.. +    +.++|.+.
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35778888888764   77888889999999999999999999999865   56777778878877 6    89999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-cCHHHHHHHHHHHHh----cCCHHHHHHHH
Q 039177          299 IACMEELGSKPDVITYNTLLQALCK----VRELNRLRELVKEMKWKGIV-LNLQTYSIMIDGLAS----KGDIIEACGLL  369 (453)
Q Consensus       299 ~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~-p~~~~~~~li~~~~~----~g~~~~A~~~~  369 (453)
                      |+...+.|   +...+..|...|..    .+++++|...|+...+.|.. .+...+..|...|..    .++.++|...|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            99998864   67788888888887    88999999999999988642 126788889999988    88999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhC-C-----CHHHHHHHHHHHhhCCCC
Q 039177          370 EEALNKGLCTQSSMFDETICGLCQR-G-----LVRKALELLKQMADKDVS  413 (453)
Q Consensus       370 ~~m~~~~~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~~~  413 (453)
                      ++..+.+  .+...+..|...|... |     ++++|..+|++..+.|..
T Consensus       153 ~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          153 KGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            9998872  2344566677777654 3     899999999999887654

>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=98.90  E-value=2e-08  Score=100.20  Aligned_cols=174  Identities=11%  Similarity=-0.093  Sum_probs=143.5

Q ss_pred             HhcCCCChHHHHHHHHHHH--------HcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 039177          180 CEQRDLSSDELLGFVQEMK--------KLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGV  251 (453)
Q Consensus       180 ~~~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  251 (453)
                      ...++.  ++|.+.+++..        +.. +.+...+..+...|.+.|++++|++.|++..+.... +...|..+..++
T Consensus       402 ~~~~~~--~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQP--VQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCH--HHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
T ss_pred             ccccCH--HHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHH
Confidence            566777  99999999987        332 456778999999999999999999999999986544 778999999999


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 039177          252 IVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLR  331 (453)
Q Consensus       252 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~  331 (453)
                      ...|++++|+..|++.++.. +.+...+..+..+|.+.|++++ .+.|++..+... -+...|..+..+|.+.|++++|.
T Consensus       478 ~~~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999998864 2356788889999999999999 999999988642 25678999999999999999999


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCC
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGD  361 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  361 (453)
                      ..|+...+.+.. +...+..+..++...|+
T Consensus       555 ~~~~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          555 RTLDEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HHHHhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            999988876443 46677788888766555

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.89  E-value=1.2e-07  Score=82.59  Aligned_cols=171  Identities=11%  Similarity=-0.079  Sum_probs=134.0

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC---hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC--CCHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG---MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK--PDIV  242 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--~~~~  242 (453)
                      +...+-.+...+.+.|++  ++|...|+.+.+.. +.+   ...+..+..+|.+.|++++|+..|++..+..+.  ....
T Consensus        14 ~~~~~~~~a~~~~~~g~~--~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKY--DRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCH--HHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CHHHHHHHHHHHHHhCCH--HHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            455666777788899999  99999999998875 223   567889999999999999999999999886331  1245


Q ss_pred             HHHHHHHHHHh--------cCCHHHHHHHHHHHHHCCCCCC-hhhH-----------------HHHHHHHHhcCCHHHHH
Q 039177          243 CYTMVLNGVIV--------QEDYVKAEELFDELLVLGLVPD-VYTY-----------------NVYINGLCKQNNVEAGI  296 (453)
Q Consensus       243 ~~~~ll~~~~~--------~g~~~~a~~~~~~m~~~g~~~~-~~~~-----------------~~li~~~~~~~~~~~a~  296 (453)
                      ++..+..++..        .|++++|+..|++.++..  |+ ....                 ..+...|.+.|++++|.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  168 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAA  168 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHH
Confidence            67777888888        999999999999998754  33 2333                 45577899999999999


Q ss_pred             HHHHHHHHCCCCC--CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCC
Q 039177          297 KMIACMEELGSKP--DVITYNTLLQALCKV----------RELNRLRELVKEMKWKGIV  343 (453)
Q Consensus       297 ~~~~~m~~~~~~p--~~~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~~~~  343 (453)
                      ..|+.+.+.....  ....+..+..+|...          |++++|...|+.+.+..+.
T Consensus       169 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~  227 (261)
T 3qky_A          169 VTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPD  227 (261)
T ss_dssp             HHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCC
Confidence            9999998754221  235677888888866          8999999999999987443

>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=98.88  E-value=2.5e-08  Score=81.32  Aligned_cols=159  Identities=11%  Similarity=0.048  Sum_probs=71.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING-LC  287 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~  287 (453)
                      +..+...+.+.|++++|+..|++..+..+. +...+..+..++...|++++|+..++......  |+...+...... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQS-RGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHT-SHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            344455555566666666666555543222 44555555556666666666666665554422  222221111101 11


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHH
Q 039177          288 KQNNVEAGIKMIACMEELGSKP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-NLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       288 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A  365 (453)
                      ..+....+...++...+..  | +...+..+...+...|++++|...|+.+.+..+.+ +...+..+...|...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAAN--PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            1111122344444444422  2 23444444445555555555555555544443321 233444444445555555555


Q ss_pred             HHHHHHH
Q 039177          366 CGLLEEA  372 (453)
Q Consensus       366 ~~~~~~m  372 (453)
                      ...|++.
T Consensus       164 ~~~y~~a  170 (176)
T 2r5s_A          164 ASKYRRQ  170 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444433

>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=98.88  E-value=9.2e-08  Score=93.62  Aligned_cols=151  Identities=11%  Similarity=-0.051  Sum_probs=84.3

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDEL  267 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  267 (453)
                      ++|.+.+++..+.. +.+...|..+...|.+.|++++|++.|++..+.... +...|..+..+|...|++++|.+.+++.
T Consensus         6 ~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~a   83 (568)
T 2vsy_A            6 PRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVLLQQA   83 (568)
T ss_dssp             ----------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            56666666655543 234556666666666667777777777666665432 4556666666666667777776666666


Q ss_pred             HHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCC
Q 039177          268 LVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV---RELNRLRELVKEMKWKGI  342 (453)
Q Consensus       268 ~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~  342 (453)
                      .+.. +.+...+..+..+|.+.|++++|.+.|++..+... .+...+..+...+...   |++++|...+++..+.+.
T Consensus        84 l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~p  159 (568)
T 2vsy_A           84 SDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQGV  159 (568)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHTC
T ss_pred             HhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcCC
Confidence            6543 23455666666666666666666666666665431 2345566666666666   666666666666666543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.87  E-value=1.4e-08  Score=80.39  Aligned_cols=138  Identities=11%  Similarity=-0.014  Sum_probs=61.1

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHH
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGI  296 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~  296 (453)
                      ...|++++|+..++........ +...+..+...|.+.|++++|++.|++.++.. +-+..+|..+..+|.+.|++++|.
T Consensus         8 ~~~~~~e~ai~~~~~a~~~~p~-~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~   85 (150)
T 4ga2_A            8 RSKADVERYIASVQGSTPSPRQ-KSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAV   85 (150)
T ss_dssp             CCHHHHHHHHHHHHHHSCSHHH-HHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcChHHHHHHHHHHhcccCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHH
Confidence            3344455555555444332111 22333344445555555555555555554432 123444455555555555555555


Q ss_pred             HHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          297 KMIACMEELGSKP-DVITYNTLLQALCKVRELNRLREL-VKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       297 ~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~-~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ..|+...+..  | +...+..+...|.+.|++++|... ++...+..+. +..+|......+...
T Consensus        86 ~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~  147 (150)
T 4ga2_A           86 ECYRRSVELN--PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCE  147 (150)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHh
Confidence            5555554432  2 234444455555555554443332 2444443322 334444444433333

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.87  E-value=3.7e-07  Score=77.58  Aligned_cols=184  Identities=10%  Similarity=-0.010  Sum_probs=117.1

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh----h
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKP--DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVY----T  278 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~----~  278 (453)
                      +...+..+...+.+.|++++|+..|+++.+..+..  ....+..+..++.+.|++++|+..|+++.+..  |+..    .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            34566777888899999999999999998753321  13567778889999999999999999988754  3322    3


Q ss_pred             HHHHHHHHHh------------------cCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          279 YNVYINGLCK------------------QNNVEAGIKMIACMEELGSKPDVI-TYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       279 ~~~li~~~~~------------------~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                      +..+..++.+                  .|+.++|...|+.+.+..  |+.. .+......          ..+...+  
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----------~~~~~~~--  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----------VFLKDRL--  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----------HHHHHHH--
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----------HHHHHHH--
Confidence            3334444443                  345666666666665532  3221 11111000          0000000  


Q ss_pred             CCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          340 KGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT--QSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       340 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                            ......+...|.+.|++++|+..|+++.+.....  ....+..+..+|.+.|+.++|.+.++.+...
T Consensus       147 ------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          147 ------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             ------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence                  0011345667888899999999999888763211  1245777788899999999999999888754

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.86  E-value=5.6e-08  Score=86.10  Aligned_cols=165  Identities=14%  Similarity=0.017  Sum_probs=88.8

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHH-
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVY-  282 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~l-  282 (453)
                      .+...+..+...+.+.|++++|+..|++..+..+. +...+..+...+...|++++|...++......  |+....... 
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHH
Confidence            33444555666666666666666666666654333 45556666666666666666666666654432  332222211 


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCC
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-NLQTYSIMIDGLASKGD  361 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  361 (453)
                      ...+.+.++.++|...+++..+... .+...+..+...|...|++++|...|..+.+..... +...+..++..|...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P-~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENP-EDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            1124444555555555555555331 134455556666666666666666666665553321 24455556666666666


Q ss_pred             HHHHHHHHHHH
Q 039177          362 IIEACGLLEEA  372 (453)
Q Consensus       362 ~~~A~~~~~~m  372 (453)
                      .++|...+++.
T Consensus       271 ~~~a~~~~r~a  281 (287)
T 3qou_A          271 GDALASXYRRQ  281 (287)
T ss_dssp             TCHHHHHHHHH
T ss_pred             CCcHHHHHHHH
Confidence            66555555543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.86  E-value=4.8e-07  Score=76.90  Aligned_cols=187  Identities=7%  Similarity=-0.097  Sum_probs=130.4

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCC-c-ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH--HH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFC-F-GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI--VC  243 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~  243 (453)
                      +...+..+...+...|+.  ++|...|+.+.+.... + ....+..+..+|.+.|++++|+..|+++.+..+.-..  .+
T Consensus         3 ~~~~~~~~a~~~~~~g~~--~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNW--RQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHH
Confidence            344566677788999999  9999999999886411 1 1356888999999999999999999999886443111  24


Q ss_pred             HHHHHHHHHh------------------cCCHHHHHHHHHHHHHCCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          244 YTMVLNGVIV------------------QEDYVKAEELFDELLVLGLVPDVY-TYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       244 ~~~ll~~~~~------------------~g~~~~a~~~~~~m~~~g~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      +..+..++..                  .|++++|...|+++++..  |+.. .+.+....          ..+...+. 
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l----------~~~~~~~~-  147 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRL----------VFLKDRLA-  147 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHH----------HHHHHHHH-
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHH----------HHHHHHHH-
Confidence            4445555544                  578999999999998853  4433 22221110          01111111 


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          305 LGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL--NLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       305 ~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                             .....+...|.+.|++++|...|+.+++..+..  ....+..+..+|.+.|+.++|.+.++.+...+
T Consensus       148 -------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 -------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             -------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             -------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                   112345677888999999999999998874331  12568888899999999999999999887764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.86  E-value=1.7e-07  Score=83.03  Aligned_cols=167  Identities=14%  Similarity=0.013  Sum_probs=119.5

Q ss_pred             CCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHH
Q 039177           77 EPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEI  156 (453)
Q Consensus        77 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~  156 (453)
                      +.+...+..+...+.+.|++++|...|+.+.+..  +.+...+..+...|.+.|++++|+..|+++...           
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-----------  180 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS--NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-----------  180 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-----------
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-----------
Confidence            3445566677778888888888888888888774  557778888888888888888888888886542           


Q ss_pred             HHHHHHCCCccChHhHHHH-HHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC
Q 039177          157 LNCMINDGFCVDGKTCSLI-LSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD  235 (453)
Q Consensus       157 ~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  235 (453)
                               .|+....... ...+...+..  +.+...+++..... +.+...+..+...|...|++++|++.|+++.+.
T Consensus       181 ---------~p~~~~~~~~~~~~l~~~~~~--~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~  248 (287)
T 3qou_A          181 ---------DQDTRYQGLVAQIELLXQAAD--TPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRX  248 (287)
T ss_dssp             ---------GCSHHHHHHHHHHHHHHHHTS--CHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ---------hcchHHHHHHHHHHHHhhccc--CccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence                     3444322222 2224455555  56777777777665 456777888888888888888888888888776


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          236 GIKP-DIVCYTMVLNGVIVQEDYVKAEELFDELL  268 (453)
Q Consensus       236 ~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  268 (453)
                      .+.. +...+..++..+...|+.++|...|++.+
T Consensus       249 ~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          249 DLTAADGQTRXTFQEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             CTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccccccchHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            4331 25677788888888888888887777654

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.86  E-value=4.5e-08  Score=79.73  Aligned_cols=162  Identities=11%  Similarity=-0.041  Sum_probs=124.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA-L  321 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~  321 (453)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...++...+..  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34556678889999999999999876643 2457788889999999999999999999987754  454433332222 2


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhCCCHHHH
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT-QSSMFDETICGLCQRGLVRKA  400 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~A  400 (453)
                      .+.+...+|...++...+..+. +...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            2323334578888888887555 78899999999999999999999999998875332 345788889999999999999


Q ss_pred             HHHHHHHh
Q 039177          401 LELLKQMA  408 (453)
Q Consensus       401 ~~~~~~m~  408 (453)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998765

>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=98.84  E-value=1.9e-07  Score=91.45  Aligned_cols=152  Identities=9%  Similarity=-0.080  Sum_probs=73.2

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 039177          220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMI  299 (453)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~  299 (453)
                      |++++|++.|++..+.... +...|..+...+...|++++|.+.|++..+.. +.+...+..+..+|...|++++|.+.+
T Consensus         3 g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHRPQ-DFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             ------------------C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4556666666665544322 45555555666666666666666666655533 223445555555556666666666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHC
Q 039177          300 ACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK---GDIIEACGLLEEALNK  375 (453)
Q Consensus       300 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~  375 (453)
                      ++..+... .+...+..+..+|.+.|++++|.+.++...+.... +...+..+...|...   |+.++|.+.+++..+.
T Consensus        81 ~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            55555321 13445555555555556666666555555554333 445555555555555   5555555555555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.84  E-value=1.3e-05  Score=76.33  Aligned_cols=330  Identities=11%  Similarity=-0.058  Sum_probs=175.8

Q ss_pred             CCcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCC-cchHHHHHHHHHHcCCC-CCCHHHHHHHHHHHH----hcCCh
Q 039177           59 KQPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQ-FCDISSVLDHIEKRENF-ETPEFIFIDLIKTYA----DAHRF  132 (453)
Q Consensus        59 ~~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~-~~~~~~~~~li~~~~----~~g~~  132 (453)
                      ++...+..++..+..  ..|+...|...++...+.+. .+....+|+.....-|. +.+..+|...+..+.    ..|++
T Consensus        28 ~~~e~~~~iferal~--~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLK--KSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHST--TCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            456677778877655  34799999998888877663 46678899988876453 346788888888765    34678


Q ss_pred             hHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCc------------------------------cChHhHHHHHHHHHhc
Q 039177          133 QDSVNLFYKIPKFRINRVGFAIEILNCMINDGFC------------------------------VDGKTCSLILSSVCEQ  182 (453)
Q Consensus       133 ~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~------------------------------p~~~~~~~ll~~~~~~  182 (453)
                      +.+..+|++.........+.-...|..+....-.                              .+...|...+.--...
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~  185 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMEN  185 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcC
Confidence            8899999987665444444443333333321000                              0111233333221111


Q ss_pred             C-CCC----hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          183 R-DLS----SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY  257 (453)
Q Consensus       183 ~-~~~----~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  257 (453)
                      + ...    .+.+..+|+++.... +.+...|...+..+.+.|+++.|..+|++....  +.+...|.    .|....+.
T Consensus       186 ~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~  258 (493)
T 2uy1_A          186 GMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDE  258 (493)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTC
T ss_pred             CccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcch
Confidence            0 111    123445666655543 344556666666666677777777777777665  22222222    12221111


Q ss_pred             HHHHHHHHHHHHCC---------C---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 039177          258 VKAEELFDELLVLG---------L---VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR  325 (453)
Q Consensus       258 ~~a~~~~~~m~~~g---------~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  325 (453)
                      ++.   ++.+.+.-         .   ......|...+....+.+..+.|..+|+.. +.. ..+...|......-...+
T Consensus       259 ~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~  333 (493)
T 2uy1_A          259 EAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYAT  333 (493)
T ss_dssp             THH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHH
T ss_pred             hHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHC
Confidence            111   22221110         0   001234555555555566677777777766 211 123333332222212222


Q ss_pred             -CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHH
Q 039177          326 -ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       326 -~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                       +.+.|..+|+...+.-.. +...|...++...+.|+.+.|..+|+.+.     .....|...+..-...|+.+.+..++
T Consensus       334 ~d~~~ar~ife~al~~~~~-~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~  407 (493)
T 2uy1_A          334 GSRATPYNIFSSGLLKHPD-STLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELV  407 (493)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence             477777777776665322 33445556666666777777777777651     13455665665555667777777766


Q ss_pred             HHHh
Q 039177          405 KQMA  408 (453)
Q Consensus       405 ~~m~  408 (453)
                      +++.
T Consensus       408 ~~~~  411 (493)
T 2uy1_A          408 DQKM  411 (493)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6655

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.80  E-value=3.7e-08  Score=77.87  Aligned_cols=142  Identities=8%  Similarity=-0.125  Sum_probs=80.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 039177          250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNR  329 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~  329 (453)
                      .+...|++++|+..+....... +.+...+-.+...|.+.|++++|.+.|+...+... -+...|..+..+|.+.|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCchHH
Confidence            3344566666666666554321 11233445566666777777777777776666432 145566666677777777777


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHCCCCCChhhHHHHHHHHHhCC
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGL-LEEALNKGLCTQSSMFDETICGLCQRG  395 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~~~~~~~~~~~~li~~~~~~g  395 (453)
                      |...|+...+..+. +...|..+...|.+.|+.++|.+. +++..+.. +-+..+|......+...|
T Consensus        84 A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            77777776665444 556666666667777766655443 35555543 223344444444444444

>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=98.79  E-value=1.4e-06  Score=77.36  Aligned_cols=163  Identities=16%  Similarity=0.059  Sum_probs=94.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----hhhHH
Q 039177          211 NVIRSLVKKEKVFDALGILNQMKSDGI-KPDI----VCYTMVLNGVIVQEDYVKAEELFDELLVLGLV-PD----VYTYN  280 (453)
Q Consensus       211 ~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~----~~~~~  280 (453)
                      ..+..+...|++++|.+.+++..+... .|+.    ..+..+...+...|++++|+..|++..+.... .+    ..+++
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            346677788888888888888776422 2221    12233555555666777777777777663222 22    12466


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHH
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEE----L-GSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWK----GIVLN-LQTY  349 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~----~-~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~  349 (453)
                      .+...|...|++++|...|+...+    . +..+. ..++..+...|.+.|++++|...++...+.    +..+. ..+|
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            677777777777777777776653    1 11111 125566666666777777776666655542    11111 4456


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHH
Q 039177          350 SIMIDGLASKG-DIIEACGLLEEAL  373 (453)
Q Consensus       350 ~~li~~~~~~g-~~~~A~~~~~~m~  373 (453)
                      ..+..+|.+.| .+++|...+++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            66666666666 3466666665553

>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=98.72  E-value=5.3e-06  Score=73.52  Aligned_cols=164  Identities=10%  Similarity=-0.064  Sum_probs=124.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHH
Q 039177          246 MVLNGVIVQEDYVKAEELFDELLVLGL-VPDV----YTYNVYINGLCKQNNVEAGIKMIACMEELGSK-PD----VITYN  315 (453)
Q Consensus       246 ~ll~~~~~~g~~~~a~~~~~~m~~~g~-~~~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~  315 (453)
                      ..+..+...|++++|..+++...+... .++.    ..+..+...+...+++++|...|+...+.... ++    ..+++
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            346778899999999999999887432 2221    12334666677788999999999999874322 22    33789


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC-----CCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-hhhH
Q 039177          316 TLLQALCKVRELNRLRELVKEMKWK-----GIVLN-LQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQ-SSMF  384 (453)
Q Consensus       316 ~li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~-~~~~  384 (453)
                      .+...|...|++++|...|+.+.+.     +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|
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            9999999999999999999998852     22222 347889999999999999999999987653    22222 5678


Q ss_pred             HHHHHHHHhCCC-HHHHHHHHHHHhh
Q 039177          385 DETICGLCQRGL-VRKALELLKQMAD  409 (453)
Q Consensus       385 ~~li~~~~~~g~-~~~A~~~~~~m~~  409 (453)
                      ..+...|.+.|+ +++|.+.+++...
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            888899999994 6999999988764

>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=98.72  E-value=8.7e-07  Score=74.35  Aligned_cols=133  Identities=12%  Similarity=-0.080  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      ..+..+...+...|++++|...|++..    .++...+..+...|...|++++|...|+...+.. ..+...+..+..+|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            344556667777788888887777653    4567777777777778888888888877777653 22556777777777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCC--------------c-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh
Q 039177          322 CKVRELNRLRELVKEMKWKGIV--------------L-NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS  381 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~--------------p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  381 (453)
                      ...|++++|...|+...+....              | ....+..+..+|.+.|++++|...|++..+.  .|+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~  154 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM--KSEP  154 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSG
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc--Cccc
Confidence            7788888888887777775432              1 1256677777777777777777777777654  3554

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.71  E-value=1.7e-05  Score=70.11  Aligned_cols=226  Identities=8%  Similarity=0.008  Sum_probs=140.0

Q ss_pred             HHHHhcCCc-chHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcC--ChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCC
Q 039177           88 KTLAENSQF-CDISSVLDHIEKRENFETPEFIFIDLIKTYADAH--RFQDSVNLFYKIPKFRINRVGFAIEILNCMINDG  164 (453)
Q Consensus        88 ~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~  164 (453)
                      .+..+.|.+ ++|+.+++.+....  +.+..+|+.--..+...|  ++++++.+++.+.                  ...
T Consensus        40 ~a~~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L------------------~~n   99 (306)
T 3dra_A           40 LALMKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIA------------------LDN   99 (306)
T ss_dssp             HHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHH------------------HHC
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHH------------------HHC
Confidence            344455555 58999999999874  667788999888888888  8888888877743                  221


Q ss_pred             CccChHhHHHHHHHH----Hhc---CCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChh--HHHHHHHHHHhC
Q 039177          165 FCVDGKTCSLILSSV----CEQ---RDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVF--DALGILNQMKSD  235 (453)
Q Consensus       165 ~~p~~~~~~~ll~~~----~~~---~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~m~~~  235 (453)
                       +-+..+|+.--..+    ...   ++.  ++++.+++.+.+.. +-+-.+|+.-...+.+.|.++  ++++.++++.+.
T Consensus       100 -Pk~y~aW~~R~~iL~~~~~~l~~~~~~--~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~  175 (306)
T 3dra_A          100 -EKNYQIWNYRQLIIGQIMELNNNDFDP--YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT  175 (306)
T ss_dssp             -TTCCHHHHHHHHHHHHHHHHTTTCCCT--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH
T ss_pred             -cccHHHHHHHHHHHHHHHHhccccCCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh
Confidence             22344555443333    333   455  77888888887765 556777777777777777777  888888888776


Q ss_pred             CCCCCHHHHHHHHHHHHhcCC------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHHCC--
Q 039177          236 GIKPDIVCYTMVLNGVIVQED------YVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEA-GIKMIACMEELG--  306 (453)
Q Consensus       236 ~~~~~~~~~~~ll~~~~~~g~------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~-a~~~~~~m~~~~--  306 (453)
                      .+. |...|+.-...+.+.+.      ++++++.++.++... +-|...|+-.-..+.+.|+... +..+...+.+.+  
T Consensus       176 d~~-N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~  253 (306)
T 3dra_A          176 DLK-NNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKD  253 (306)
T ss_dssp             CTT-CHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGT
T ss_pred             CCC-CHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCC
Confidence            655 66777766555555554      566666666665543 2455566655555555554322 333444433321  


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKW  339 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  339 (453)
                      -..+...+..+...|.+.|+.++|.++++.+.+
T Consensus       254 ~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          254 QVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             EESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            112445555555555555555555555555554

>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=98.70  E-value=1.9e-06  Score=72.20  Aligned_cols=132  Identities=11%  Similarity=-0.056  Sum_probs=107.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                      ..+..+...+...|++++|++.|++..    .|+...|..+..++...|++++|+..|++..+.. +.+...+..+..+|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            446677888889999999999998774    4578888999999999999999999999888754 34677888888899


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCC--------------C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          287 CKQNNVEAGIKMIACMEELGSK--------------P-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIV  343 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~--------------p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  343 (453)
                      ...|++++|...|+...+....              | ....+..+..+|.+.|++++|...|+...+....
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            9999999999999998875422              1 1267888888999999999999999998887543

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.68  E-value=6.7e-07  Score=80.01  Aligned_cols=186  Identities=6%  Similarity=-0.027  Sum_probs=124.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-ChhhHHHH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSD----GIKP-DIVCYTMVLNGVIVQEDYVKAEELFDELLVL----GLVP-DVYTYNVY  282 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~~-~~~~~~~l  282 (453)
                      ...|...|++++|.+.|.+..+.    +-.. -..+|+.+..+|...|++++|+..|++.++.    |-.. -..++..+
T Consensus        43 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~l  122 (307)
T 2ifu_A           43 AVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRA  122 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45677778888888888777542    1110 1346777778888888888888888876542    1111 13466677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKP-D----VITYNTLLQALCKVRELNRLRELVKEMKWK----GIVLN-LQTYSIM  352 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p-~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~~~l  352 (453)
                      ...|.. |++++|+..|++..+..... +    ..++..+...|.+.|++++|+..|+...+.    +..+. ...+..+
T Consensus       123 g~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  201 (307)
T 2ifu_A          123 GKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQ  201 (307)
T ss_dssp             HHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHH
Confidence            777877 99999999888876521110 1    357888888999999999999999988764    22111 2366677


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCh------hhHHHHHHHHHhCCCHHHHHHH
Q 039177          353 IDGLASKGDIIEACGLLEEALNKGLCTQS------SMFDETICGLCQRGLVRKALEL  403 (453)
Q Consensus       353 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~  403 (453)
                      ..++...|++++|...|++.. .  .|+.      .....++.++ ..|+.+.+.++
T Consensus       202 g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          202 VLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            778888899999999999887 4  2221      1234445555 56777666553

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.68  E-value=6.4e-07  Score=80.11  Aligned_cols=195  Identities=9%  Similarity=-0.053  Sum_probs=140.7

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDEL  267 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  267 (453)
                      ++|.+++++..+.. +.+         .+...++++.|...|...               ...|...|++++|...|.+.
T Consensus         8 ~eA~~~~~~a~k~~-~~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~a   62 (307)
T 2ifu_A            8 SEAHEHIAKAEKYL-KTS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYLQE   62 (307)
T ss_dssp             HHHHHHHHHHHHHH-CCC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-ccc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHH
Confidence            67777777666542 111         011147788888877765               45678889999999999887


Q ss_pred             HHC----CCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C-CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          268 LVL----GLVP-DVYTYNVYINGLCKQNNVEAGIKMIACMEELG--S-KPD--VITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       268 ~~~----g~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~-~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                      .+.    +-.. -..+|+.+...|.+.|++++|...|++..+.-  . .+.  ..++..+...|.. |++++|+..|+..
T Consensus        63 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~A  141 (307)
T 2ifu_A           63 AEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQA  141 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHH
Confidence            652    1111 13477888889999999999999998876531  1 111  3578888889988 9999999999988


Q ss_pred             HHCCCC----c-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          338 KWKGIV----L-NLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQ-SSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       338 ~~~~~~----p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      .+....    . ...++..+...|.+.|++++|+..|++..+.    +..+. ...+..+...+...|++++|...|++.
T Consensus       142 l~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~a  221 (307)
T 2ifu_A          142 AAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRES  221 (307)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            764211    1 1467888999999999999999999998764    21111 125666667788889999999999998


Q ss_pred             h
Q 039177          408 A  408 (453)
Q Consensus       408 ~  408 (453)
                      .
T Consensus       222 l  222 (307)
T 2ifu_A          222 Y  222 (307)
T ss_dssp             T
T ss_pred             h
Confidence            7

>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=98.67  E-value=1.2e-05  Score=71.99  Aligned_cols=229  Identities=8%  Similarity=0.004  Sum_probs=163.5

Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 039177          176 LSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE-KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQ  254 (453)
Q Consensus       176 l~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  254 (453)
                      +.+..+.+..+ ++|+++++.+.... +-+..+|+.--..+...| .+++++++++.+....++ +..+|+.-...+.+.
T Consensus        60 ~r~~~~~~e~s-e~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l  136 (349)
T 3q7a_A           60 FRAIAAKEEKS-ERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRI  136 (349)
T ss_dssp             HHHHHHTTCCS-HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCC-HHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHh
Confidence            33444444444 78899999888876 445566888777777788 599999999999988766 778888777777776


Q ss_pred             -C-CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          255 -E-DYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE--------AGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       255 -g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                       + ++++++++++.+++.. .-+-.+|+--.....+.|..+        ++++.++.+.+.... |...|+.....+.+.
T Consensus       137 ~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l  214 (349)
T 3q7a_A          137 SPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSR  214 (349)
T ss_dssp             CCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTS
T ss_pred             cCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence             6 8889999999988754 346677766555555555555        888888888886543 777888877777777


Q ss_pred             CC-------HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHCC-
Q 039177          325 RE-------LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI--------------------IEACGLLEEALNKG-  376 (453)
Q Consensus       325 ~~-------~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~~~~-  376 (453)
                      +.       ++++++.++.++...+. |...|+-+-..+.+.|+.                    .....+..++...+ 
T Consensus       215 ~~~~~~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  293 (349)
T 3q7a_A          215 PGAETSSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPL  293 (349)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CC
T ss_pred             cccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhccc
Confidence            76       68888999888888766 888888877777766653                    22333333332221 


Q ss_pred             ----CCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhC
Q 039177          377 ----LCTQSSMFDETICGLCQRGLVRKALELLKQMADK  410 (453)
Q Consensus       377 ----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  410 (453)
                          -.++......|+..|...|+.++|.++++.+.++
T Consensus       294 ~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          294 PEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             CSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                1356667888889999999999999999998643

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.65  E-value=6.1e-06  Score=73.11  Aligned_cols=165  Identities=8%  Similarity=-0.075  Sum_probs=101.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC--HHH
Q 039177          244 YTMVLNGVIVQEDYVKAEELFDELLVLGLVPD-----VYTYNVYINGLCKQNNVEAGIKMIACMEELGS---KPD--VIT  313 (453)
Q Consensus       244 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~  313 (453)
                      +...+..+...|++++|.+.+....+.....+     ...+..+...+...|++++|...++...+...   .+.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            33445555666666666666665555321111     01123344456667777777777777664321   111  346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH---C-CCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCC-Chh
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKW---K-GIVL--NLQTYSIMIDGLASKGDIIEACGLLEEALNKG----LCT-QSS  382 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~---~-~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~~-~~~  382 (453)
                      ++.+...|...|++++|...|+...+   . +..+  ...++..+...|...|++++|...+++..+..    ... -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            77777888888888888888877763   2 1111  12477778888888888888888888765431    111 145


Q ss_pred             hHHHHHHHHHhCCCHHHH-HHHHHHHh
Q 039177          383 MFDETICGLCQRGLVRKA-LELLKQMA  408 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A-~~~~~~m~  408 (453)
                      +|..+...|.+.|++++| ...+++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            677777888888888888 66677654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.64  E-value=2.8e-06  Score=75.36  Aligned_cols=169  Identities=14%  Similarity=-0.014  Sum_probs=127.3

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC---CC--
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDI-----VCYTMVLNGVIVQEDYVKAEELFDELLVLGLV---PD--  275 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~---~~--  275 (453)
                      ...+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|+..+.+..+....   +.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            445667788999999999999999988775332111     23344556677889999999999998763221   11  


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCc-
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEEL-GSKPD-----VITYNTLLQALCKVRELNRLRELVKEMKWKG----IVL-  344 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p-  344 (453)
                      ..+++.+...|...|++++|...|++..+. ...|+     ..++..+...|.+.|++++|...++...+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            347888999999999999999999988731 01122     2588899999999999999999999877542    111 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHH-HHHHHHHHH
Q 039177          345 NLQTYSIMIDGLASKGDIIEA-CGLLEEALN  374 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  374 (453)
                      -..+|..+..+|.+.|+.++| ...+++...
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            166889999999999999999 777877653

>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=98.64  E-value=1.9e-06  Score=68.85  Aligned_cols=126  Identities=12%  Similarity=0.014  Sum_probs=68.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS  358 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  358 (453)
                      +..+...+...|++++|...|+...+... .+..++..+...+...|++++|...+....+.... +...+..+..+|..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHH
Confidence            44444555555666666666655554321 13455555666666666666666666666555332 45556666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChhhHHH--HHHHHHhCCCHHHHHHHHHHH
Q 039177          359 KGDIIEACGLLEEALNKGLCTQSSMFDE--TICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       359 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~--li~~~~~~g~~~~A~~~~~~m  407 (453)
                      .|++++|...|++..+.. ..+...+..  +...+...|++++|+..+...
T Consensus        94 ~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            666666666666665543 112223322  222355556666666666554

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.61  E-value=1.1e-06  Score=66.97  Aligned_cols=94  Identities=11%  Similarity=-0.072  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+......|.+.|++++|+..|++.++..+. +...|..+..+|.+.|++++|+..|++..+.+ +.+...|..+..+|.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            3444555555555555555555555554433 45555555555555555555555555555543 223444555555555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|++.|++..
T Consensus        93 ~~~~~~~A~~~~~~al  108 (126)
T 4gco_A           93 AMREWSKAQRAYEDAL  108 (126)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5566666666555555

>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=98.61  E-value=2.8e-06  Score=67.81  Aligned_cols=128  Identities=9%  Similarity=-0.022  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      .+..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...++...+... .+...+..+..++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHH
Confidence            34445555555566666666665555432 22445555555666666666666666666655431 24455666666666


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCcCHHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 039177          323 KVRELNRLRELVKEMKWKGIVLNLQTYS--IMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~--~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      ..|++++|...|+...+.... +...+.  .+...+...|++++|...+....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            667777777776666665333 333332  23333556677777777666543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.58  E-value=2.9e-06  Score=63.86  Aligned_cols=93  Identities=18%  Similarity=0.129  Sum_probs=37.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ..+...+...|++++|.+.++.+.+.. ..+..++..+...+.+.|++++|..+++.+.+.... +..++..+...|...
T Consensus        13 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~   90 (125)
T 1na0_A           13 YNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHh
Confidence            333333444444444444444433321 112333444444444444444444444444433221 333444444444444


Q ss_pred             CCHHHHHHHHHHHHH
Q 039177          360 GDIIEACGLLEEALN  374 (453)
Q Consensus       360 g~~~~A~~~~~~m~~  374 (453)
                      |++++|...|+++.+
T Consensus        91 ~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           91 GDYDEAIEYYQKALE  105 (125)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            444444444444433

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.58  E-value=2.4e-06  Score=73.84  Aligned_cols=198  Identities=10%  Similarity=-0.065  Sum_probs=130.7

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHH-------HHHHHhcCCHHHHHHHHHHHHHCCCCCC---------------
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMV-------LNGVIVQEDYVKAEELFDELLVLGLVPD---------------  275 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l-------l~~~~~~g~~~~a~~~~~~m~~~g~~~~---------------  275 (453)
                      ..++...|.+.|.++.+..+. ....|..+       ...+...++..+++..+..-.+  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~-~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDES-ACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhChh-hhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            568888888888888876544 55666666       3444444444444444433332  2221               


Q ss_pred             -------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--H
Q 039177          276 -------VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN--L  346 (453)
Q Consensus       276 -------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~  346 (453)
                             ....-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|....+.. .|.  .
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~  171 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAG  171 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHH
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHH
Confidence                   1223445667788899999999998887644  544455556668888999999999997554432 111  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQ--SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++..  ..|+...+..|-
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a--~~P~~~~~~aL~  248 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQT--THPEPKVAAALK  248 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcHHHHHHHh
Confidence            3677788888999999999999998875432143  23455566788889999999999999885  356644444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.58  E-value=3.3e-06  Score=63.51  Aligned_cols=96  Identities=19%  Similarity=0.151  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 039177          243 CYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALC  322 (453)
Q Consensus       243 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  322 (453)
                      .|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+.. ..+..++..+...|.
T Consensus        11 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            34444444444444444444444444332 1233444444444555555555555555544432 123444455555555


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 039177          323 KVRELNRLRELVKEMKWK  340 (453)
Q Consensus       323 ~~~~~~~a~~~~~~~~~~  340 (453)
                      ..|++++|...++.+.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            555555555555555544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.56  E-value=1e-06  Score=73.23  Aligned_cols=156  Identities=11%  Similarity=-0.061  Sum_probs=80.4

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CChhhHHHHHHHHHhcCC
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL----GLV-PDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~~~  291 (453)
                      ...|++++|.++++.+.. .......++..+...+...|++++|...+++..+.    +.. ....++..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            345666666664444432 12224556666666666677777777666665441    111 123345555566666666


Q ss_pred             HHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cCHHHHHHHHHHHHhcC
Q 039177          292 VEAGIKMIACMEEL----GSKP--DVITYNTLLQALCKVRELNRLRELVKEMKWK----GIV-LNLQTYSIMIDGLASKG  360 (453)
Q Consensus       292 ~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~li~~~~~~g  360 (453)
                      +++|...+++..+.    +-.+  ....+..+...+...|++++|...+++..+.    +.. .-..++..+...|...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            66666666655432    1011  1234555566666666666666666655432    110 01223455555666666


Q ss_pred             CHHHHHHHHHHHH
Q 039177          361 DIIEACGLLEEAL  373 (453)
Q Consensus       361 ~~~~A~~~~~~m~  373 (453)
                      ++++|.+.+++..
T Consensus       162 ~~~~A~~~~~~al  174 (203)
T 3gw4_A          162 NLLEAQQHWLRAR  174 (203)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
Confidence            6666666665543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.55  E-value=1.1e-06  Score=69.08  Aligned_cols=94  Identities=11%  Similarity=-0.037  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+..+...+.+.|++++|...|+.+.+..+. +...|..+..+|...|++++|+..|++..+.+ +.+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            4444455555555555555555555555433 45555555555555555555555555555543 223344555555555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|...|++..
T Consensus       116 ~lg~~~eA~~~~~~al  131 (151)
T 3gyz_A          116 RLKAPLKAKECFELVI  131 (151)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            5555555555555555

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.55  E-value=0.00027  Score=67.31  Aligned_cols=331  Identities=11%  Similarity=0.004  Sum_probs=181.5

Q ss_pred             CCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCC-hhHHHHHHhhcccC-----C------------------CCc
Q 039177           94 SQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHR-FQDSVNLFYKIPKF-----R------------------INR  149 (453)
Q Consensus        94 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~-----~------------------~~~  149 (453)
                      ++++.+..+|+.....   .|+..+|...+....+.+. .+....+|+.....     .                  .+.
T Consensus        28 ~~~e~~~~iferal~~---~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~  104 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK---SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTR  104 (493)
T ss_dssp             TCHHHHHHHHHHHSTT---CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHH
T ss_pred             CCHHHHHHHHHHHhcc---CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHH
Confidence            8899999999999975   5799999999999888774 34455556553321     0                  123


Q ss_pred             HHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCC-----------hHHHHHHHHHHHHcCCCcChhhHHHHHHHHHh
Q 039177          150 VGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLS-----------SDELLGFVQEMKKLGFCFGMVDYTNVIRSLVK  218 (453)
Q Consensus       150 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~-----------~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  218 (453)
                      .+.+..+|++.+.....--...|......-...+...           ...|..+++.+...--..+...|...+..-..
T Consensus       105 ~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~  184 (493)
T 2uy1_A          105 IEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEME  184 (493)
T ss_dssp             HHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhc
Confidence            4456666666655211111112222222111111000           01122222222211000122344444443222


Q ss_pred             cC--C-----hhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 039177          219 KE--K-----VFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       219 ~g--~-----~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  291 (453)
                      .+  -     .+.+..+|+++....+ .+...|...+.-+.+.|+.+.|..+|++....   |.......   .|....+
T Consensus       185 ~~~~~~~~~~~~Rv~~~ye~al~~~p-~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~e  257 (493)
T 2uy1_A          185 NGMKLGGRPHESRMHFIHNYILDSFY-YAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVMD  257 (493)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHTT
T ss_pred             CCccCcchhhHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhcc
Confidence            11  1     2345667877776533 35777877788888888999999999988876   43332211   2332221


Q ss_pred             HHHHHHHHHHHHHCC---------CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          292 VEAGIKMIACMEELG---------SKP---DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       292 ~~~a~~~~~~m~~~~---------~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      .++.   ++.+.+.-         ..+   ....|...+..+.+.++.+.|..+|... +. ...+...|......-...
T Consensus       258 ~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~  332 (493)
T 2uy1_A          258 EEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYA  332 (493)
T ss_dssp             CTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHH
T ss_pred             hhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHH
Confidence            1111   22222110         001   1245666677777788899999999998 32 223445554333322233


Q ss_pred             C-CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhc--hhcchhhHHHH
Q 039177          360 G-DIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLS--SVSKLDFVNTS  436 (453)
Q Consensus       360 g-~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a--~~~~~~~~~~~  436 (453)
                      | +.+.|..+|+...+.. .-+...+...+....+.|+.+.|..+|+...     -....|...+.-  -.+..+.+.+.
T Consensus       333 ~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v  406 (493)
T 2uy1_A          333 TGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFREL  406 (493)
T ss_dssp             HCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            3 6999999999998763 2234455666777788899999999999973     245556655532  23444455555


Q ss_pred             HHHHHHhhh
Q 039177          437 FIRLVDQIL  445 (453)
Q Consensus       437 ~~~~~~~~~  445 (453)
                      +.+.++.+.
T Consensus       407 ~~~~~~~~~  415 (493)
T 2uy1_A          407 VDQKMDAIK  415 (493)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            777776554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.54  E-value=1.2e-06  Score=72.78  Aligned_cols=157  Identities=11%  Similarity=-0.055  Sum_probs=115.6

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCC
Q 039177          252 IVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEEL----GSKP-DVITYNTLLQALCKVRE  326 (453)
Q Consensus       252 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~  326 (453)
                      ...|++++|.++++.+.. ........+..+...|...|++++|...+++..+.    +..+ ...++..+...|...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            467999999996655543 22235677888889999999999999999987752    2122 23578888899999999


Q ss_pred             HHHHHHHHHHHHHC----CCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC---CCCC--hhhHHHHHHHHHhCC
Q 039177          327 LNRLRELVKEMKWK----GIVL--NLQTYSIMIDGLASKGDIIEACGLLEEALNKG---LCTQ--SSMFDETICGLCQRG  395 (453)
Q Consensus       327 ~~~a~~~~~~~~~~----~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~~~--~~~~~~li~~~~~~g  395 (453)
                      +++|...+.+..+.    +-.+  ....+..+...+...|++++|...+++.....   -.+.  ..++..+...+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999999987764    2121  24567888899999999999999999886431   1111  234577788899999


Q ss_pred             CHHHHHHHHHHHhh
Q 039177          396 LVRKALELLKQMAD  409 (453)
Q Consensus       396 ~~~~A~~~~~~m~~  409 (453)
                      ++++|...+++..+
T Consensus       162 ~~~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NLLEAQQHWLRARD  175 (203)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            99999999988764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.53  E-value=4.8e-06  Score=63.30  Aligned_cols=93  Identities=12%  Similarity=0.007  Sum_probs=35.4

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      +......|.+.|++++|++.|++..+..+. +..+|..+..+|.+.|++++|+..|+..++.. +.+...|..+..+|..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPE-NAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            333344444444444444444444333221 33333334444444444444444444333322 1223333333333333


Q ss_pred             cCCHHHHHHHHHHHH
Q 039177          289 QNNVEAGIKMIACME  303 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~  303 (453)
                      .|++++|.+.|+...
T Consensus        94 ~~~~~~A~~~~~~al  108 (126)
T 4gco_A           94 MREWSKAQRAYEDAL  108 (126)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            444444444333333

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.51  E-value=4.2e-06  Score=65.82  Aligned_cols=99  Identities=8%  Similarity=-0.056  Sum_probs=77.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...+..+...+.+.|++++|...|+...+... -+...|..+..+|...|++++|...|+...+..+. +...|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDF-YNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHH
Confidence            44566677778888888888888888887542 25677888888888888888888888888887655 66778888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCC
Q 039177          356 LASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      |...|++++|...|++..+..
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHHhC
Confidence            888888888888888887753

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.51  E-value=4.3e-06  Score=63.47  Aligned_cols=92  Identities=18%  Similarity=0.130  Sum_probs=38.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcC
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKG  360 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  360 (453)
                      .+...+...|++++|...|+...+... .+...+..+...+...|++++|...+....+.... +...+..+...|...|
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIELNP-ANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPA-YSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCcc-CHHHHHHHHHHHHHhC
Confidence            333334444444444444444433211 12334444444444444444444444444443222 3334444444444444


Q ss_pred             CHHHHHHHHHHHHH
Q 039177          361 DIIEACGLLEEALN  374 (453)
Q Consensus       361 ~~~~A~~~~~~m~~  374 (453)
                      ++++|...|++..+
T Consensus        95 ~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           95 KHVEAVAYYKKALE  108 (131)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            44444444444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.50  E-value=3.8e-06  Score=64.15  Aligned_cols=95  Identities=14%  Similarity=0.075  Sum_probs=41.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                      .+..+...+...|++++|...|+...+... .+...+..+...|...|++++|...++...+.... +...+..+..+|.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHHHHH
Confidence            333444444444444444444444443221 13334444444444444444444444444443222 3444444444444


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 039177          358 SKGDIIEACGLLEEALN  374 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~  374 (453)
                      ..|++++|.+.|++..+
T Consensus        96 ~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            45555555555544443

>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=98.50  E-value=3.6e-06  Score=76.25  Aligned_cols=157  Identities=8%  Similarity=-0.082  Sum_probs=74.7

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 039177          220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMI  299 (453)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~  299 (453)
                      +++++|++.|+...+..+ -+...|..+...+.+.|++++|+..|++.++..  |+...+           ..+.+.++ 
T Consensus       127 ~~~~~A~~~~~~a~~~~p-~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~-----------~~~~~~~~-  191 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEKL-EQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSF-----------SNEEAQKA-  191 (336)
T ss_dssp             EEEECCCCGGGCCHHHHH-HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCC-----------CSHHHHHH-
T ss_pred             eecccccchhcCCHHHHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccC-----------ChHHHHHH-
Confidence            334445444443332211 145677777777888888888888888777643  222000           00000000 


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 039177          300 ACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT  379 (453)
Q Consensus       300 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  379 (453)
                         ..    .....|..+..+|.+.|++++|+..++..++.... +...|..+..+|...|++++|...|++..+.. +.
T Consensus       192 ---~~----~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~  262 (336)
T 1p5q_A          192 ---QA----LRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PN  262 (336)
T ss_dssp             ---HH----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SS
T ss_pred             ---HH----HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CC
Confidence               00    00234444445555555555555555555444332 44455555555555555555555555554432 12


Q ss_pred             ChhhHHHHHHHHHhCCCHHHH
Q 039177          380 QSSMFDETICGLCQRGLVRKA  400 (453)
Q Consensus       380 ~~~~~~~li~~~~~~g~~~~A  400 (453)
                      +...+..+...+.+.|+.++|
T Consensus       263 ~~~a~~~l~~~~~~~~~~~~a  283 (336)
T 1p5q_A          263 NKAAKTQLAVCQQRIRRQLAR  283 (336)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHH
Confidence            333444444455555555544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.49  E-value=5.2e-06  Score=63.00  Aligned_cols=96  Identities=10%  Similarity=-0.011  Sum_probs=43.4

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                      ..+..+...+...|++++|+..|++..+.... +...+..+..++...|++++|...++...+.. +.+...+..+...|
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            34444455555555555555555554443211 34444444444444555555555544444432 12233344444444


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 039177          287 CKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~  304 (453)
                      ...|++++|...|+...+
T Consensus        91 ~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            444444444444444443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.48  E-value=4.6e-06  Score=63.67  Aligned_cols=97  Identities=11%  Similarity=-0.000  Sum_probs=49.9

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      ...|..+...+.+.|++++|++.|++..+.... +...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPK-DAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            344555555555666666666666555544322 44455555555555555555555555554432 1234444444445


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~  304 (453)
                      |.+.|++++|.+.|+...+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            5555555555555555444

>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=1.6e-06  Score=70.41  Aligned_cols=120  Identities=8%  Similarity=0.067  Sum_probs=53.8

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCH--HH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQA-LCKVREL--NR  329 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~--~~  329 (453)
                      ..|++++|...++...+.. +.+...|..+...|...|++++|...|+...+... .+...+..+..+ |...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRG-ENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCCcchHH
Confidence            3444555555555544432 12344444555555555555555555555444321 133344444444 4444554  55


Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |...++.+.+.... +...+..+...|...|++++|...|++..+.
T Consensus       100 A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            55555555444322 3444444444555555555555555544443

>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=98.46  E-value=2.5e-06  Score=75.17  Aligned_cols=98  Identities=11%  Similarity=-0.066  Sum_probs=64.3

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      +...+..+...+.+.|++++|+..|++..+.... +...|..+..+|.+.|++++|+..++...+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            3455666667777777777777777777665332 56666667777777777777777777666543 234556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~  304 (453)
                      +|...|++++|...|+...+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            67777777777777766655

>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=98.45  E-value=0.00012  Score=65.12  Aligned_cols=222  Identities=9%  Similarity=-0.014  Sum_probs=153.9

Q ss_pred             HHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC----------hhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          178 SVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK----------VFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      ...+.|..+ ++|+.+++.+.... +-+..+|+.--..+...+.          +++++.+++.+....++ +..+|+.-
T Consensus        38 ~~~~~~e~s-~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR  114 (331)
T 3dss_A           38 QKRQAGELD-ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHR  114 (331)
T ss_dssp             HHHHTTCCS-HHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHcCCCC-HHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            345666665 68888888888765 3344456644444433332          67888888888887655 77888877


Q ss_pred             HHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          248 LNGVIVQE--DYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN-VEAGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       248 l~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                      .-.+.+.+  ++++++.+++.+.+.. +-|-.+|+.-.......|. .+++++.+..+.+..+. |...|+.....+.+.
T Consensus       115 ~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l  192 (331)
T 3dss_A          115 CWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQL  192 (331)
T ss_dssp             HHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHH
T ss_pred             HHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHh
Confidence            77777777  4889999999998865 3577788777777778887 58899999888886543 666776665555544


Q ss_pred             --------------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHCCCCC
Q 039177          325 --------------RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK-----------GDIIEACGLLEEALNKGLCT  379 (453)
Q Consensus       325 --------------~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m~~~~~~~  379 (453)
                                    +.++++++.+.......+. |...|+-+--.+.+.           +.++++++.++++.+..  |
T Consensus       193 ~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~--p  269 (331)
T 3dss_A          193 HPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE--P  269 (331)
T ss_dssp             SCCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC--T
T ss_pred             hhccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC--c
Confidence                          4578888999888887766 788887655555554           45788888898888753  4


Q ss_pred             ChhhHHHHHH-----HHHhCCCHHHHHHHHHHHh
Q 039177          380 QSSMFDETIC-----GLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       380 ~~~~~~~li~-----~~~~~g~~~~A~~~~~~m~  408 (453)
                      +. .|..+..     +....|..+++..++.++.
T Consensus       270 d~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~  302 (331)
T 3dss_A          270 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLK  302 (331)
T ss_dssp             TC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHH
T ss_pred             cc-chHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            43 2332221     1223566777778888777

>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=98.45  E-value=1e-06  Score=77.60  Aligned_cols=195  Identities=12%  Similarity=-0.035  Sum_probs=132.1

Q ss_pred             ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          168 DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       168 ~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      +...+..+...+...|++  ++|...|+...+.. +.+...|..+...|.+.|++++|+..+++..+.... +...+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~--~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l   78 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKY--PEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFL   78 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            445677778888999999  99999999998875 447788999999999999999999999999987544 77889999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDV-YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE  326 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  326 (453)
                      ..++...|++++|...|+...+..  |+. ..+...+....+.   ..+.. +..........+......+...  ..|+
T Consensus        79 g~~~~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~i~~~l~~l--~~~~  150 (281)
T 2c2l_A           79 GQCQLEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKKR-WNSIEERRIHQESELHSYLTRL--IAAE  150 (281)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHHH-HHHHHHTCCCCCCHHHHHHHHH--HHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHHH-HHHHHHHHHhhhHHHHHHHHHH--HHHH
Confidence            999999999999999999887642  211 1111122221111   11111 2222333333444444444332  2688


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHC
Q 039177          327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK-GDIIEACGLLEEALNK  375 (453)
Q Consensus       327 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~  375 (453)
                      +++|.+.++...+.... +......+-..+.+. +.+++|.++|.++.+.
T Consensus       151 ~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          151 RERELEECQRNHEGHED-DGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHTTTSGGGTTTSC-HHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHhhhccccc-hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            88998888877765322 333444444445554 6788899999877653

>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=98.45  E-value=5.6e-06  Score=74.95  Aligned_cols=145  Identities=12%  Similarity=-0.111  Sum_probs=81.8

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      +...|..+...|.+.|++++|+..|++..+........             ..+.+..+- .       .....|..+..
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~-------------~~~~~~~~~-~-------~~~~~~~nla~  204 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSF-------------SNEEAQKAQ-A-------LRLASHLNLAM  204 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCC-------------CSHHHHHHH-H-------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccC-------------ChHHHHHHH-H-------HHHHHHHHHHH
Confidence            46778999999999999999999999998764332100             001111000 0       01234444555


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      +|.+.|++++|...++...+... .+...|..+..+|...|++++|...|+..++.... +...+..+..++.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            55555555555555555555321 13445555556666666666666666665555433 45555556666666666655


Q ss_pred             H-HHHHHHH
Q 039177          365 A-CGLLEEA  372 (453)
Q Consensus       365 A-~~~~~~m  372 (453)
                      | ..++..|
T Consensus       283 a~~~~~~~~  291 (336)
T 1p5q_A          283 REKKLYANM  291 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            5 3344444

>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=98.43  E-value=4.9e-06  Score=67.44  Aligned_cols=120  Identities=13%  Similarity=0.057  Sum_probs=61.8

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHhcCCH--HH
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYING-LCKQNNV--EA  294 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~-~~~~~~~--~~  294 (453)
                      ..|++++|+..++...+.... +...|..+...|...|++++|...|+...+.. +.+...+..+..+ |...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHCCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            445555666666555544322 44555555556666666666666666555432 1234444445545 4455555  66


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          295 GIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       295 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      |...++...+... .+...+..+...|...|++++|...|+.+.+.
T Consensus       100 A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            6666655555321 13445555555566666666666666655554

>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=98.43  E-value=1.6e-06  Score=68.22  Aligned_cols=94  Identities=9%  Similarity=-0.115  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+..+...+.+.|++++|...|+........ +...|..+..+|...|++++|+..|++....+ +.+...+..+..+|.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            4445555566666666666666666555433 55555666666666666666666666665543 223344555556666


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|...|++..
T Consensus       101 ~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            6666666666666655

>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=4.9e-06  Score=63.16  Aligned_cols=94  Identities=15%  Similarity=0.000  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+..+...+.+.|++++|...|....+.... +...|..+..+|.+.|++++|+..|++..+.+ +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            3444444555555555555555555554333 44555555555555555555555555555443 223344555555555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|...|++..
T Consensus        84 ~~~~~~~A~~~~~~al   99 (126)
T 3upv_A           84 AVKEYASALETLDAAR   99 (126)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHH
Confidence            5555555555555554

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.41  E-value=0.00023  Score=63.66  Aligned_cols=176  Identities=7%  Similarity=-0.068  Sum_probs=115.5

Q ss_pred             HHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcC-ChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC
Q 039177           90 LAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAH-RFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD  168 (453)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~  168 (453)
                      ..+....++|+++++.+....  +.+..+|+.--..+...| .+++++.+++.+                  +.. .+-+
T Consensus        64 ~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~------------------L~~-nPKn  122 (349)
T 3q7a_A           64 AAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEF------------------AVQ-NLKS  122 (349)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH------------------HHT-TCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHH------------------HHh-CCCc
Confidence            334455568999999999874  667778888877777777 477777777663                  332 1235


Q ss_pred             hHhHHHHHHHHHhc-C-CCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChh--------HHHHHHHHHHhCCCC
Q 039177          169 GKTCSLILSSVCEQ-R-DLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVF--------DALGILNQMKSDGIK  238 (453)
Q Consensus       169 ~~~~~~ll~~~~~~-~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~m~~~~~~  238 (453)
                      ..+|+.-...+... + +.  ++++++++.+.+.. +-+..+|+.-...+.+.|.++        ++++.++++.+..+.
T Consensus       123 y~aW~hR~wlL~~l~~~~~--~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~  199 (349)
T 3q7a_A          123 YQVWHHRLLLLDRISPQDP--VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR  199 (349)
T ss_dssp             HHHHHHHHHHHHHHCCSCC--HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC
Confidence            55676666655555 5 55  78888888887765 456677776666666655555        777888877776555


Q ss_pred             CCHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCC
Q 039177          239 PDIVCYTMVLNGVIVQED-------YVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNN  291 (453)
Q Consensus       239 ~~~~~~~~ll~~~~~~g~-------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~  291 (453)
                       |...|+.....+.+.+.       ++++++.+++.+... +-|...|+-+-..+.+.|.
T Consensus       200 -N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          200 -NNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             -CHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             -CHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence             77777777666666665       566666666666543 3455666555555554443

>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=98.40  E-value=7.9e-07  Score=73.80  Aligned_cols=121  Identities=11%  Similarity=-0.047  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC--------------hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLV-PD--------------VYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~--------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      ..+..+...+...|++++|...|++..+.... ++              ...+..+..+|.+.|++++|...++...+..
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34455555666666666666666666553211 10              1333444444444444444444444444422


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          307 SKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                      . .+...+..+..+|...|++++|...|+...+.... +...+..+..++...++.++
T Consensus       119 p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          119 K-NNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             T-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC
T ss_pred             c-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHH
Confidence            1 12334444444444444444444444444443222 33344444444443333333

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.38  E-value=2.5e-05  Score=67.55  Aligned_cols=185  Identities=12%  Similarity=-0.020  Sum_probs=121.7

Q ss_pred             cCCCChHHHHHHHHHHHHcCCCcChhhHHHH-------HHHHHhcCChhHHHHHHHHHHhCCCCCC--------------
Q 039177          182 QRDLSSDELLGFVQEMKKLGFCFGMVDYTNV-------IRSLVKKEKVFDALGILNQMKSDGIKPD--------------  240 (453)
Q Consensus       182 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-------i~~~~~~g~~~~a~~~~~~m~~~~~~~~--------------  240 (453)
                      .++.  ..|.+.|.++.+.. +-....|..+       ...+.+.++..+++..+..-.+.  .|+              
T Consensus        19 ~~d~--~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l--~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           19 PMSE--ARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCC
T ss_pred             CCCH--HHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCcccc
Confidence            4444  77788887777765 3345566666       45555555556665555554441  111              


Q ss_pred             --------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-
Q 039177          241 --------IVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV-  311 (453)
Q Consensus       241 --------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-  311 (453)
                              ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.   |+. 
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~---~d~~  168 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW---PDKF  168 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC---SCHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc---CCcc
Confidence                    1223345566777888888888888776543  44335555555788888888888888755442   222 


Q ss_pred             ---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          312 ---ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN--LQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       312 ---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                         ..+..+..++.+.|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...+
T Consensus       169 ~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          169 LAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence               3567777888888888888888888875433243  3356667777788888888888888887764

>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=98.37  E-value=2.3e-06  Score=67.21  Aligned_cols=98  Identities=11%  Similarity=-0.074  Sum_probs=65.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...+..+...+.+.|++++|...|+....... .+...|..+..+|...|++++|...|+........ +...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDH-YDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHH
Confidence            34455556666777777777777777666432 25556666777777777777777777777666444 55666677777


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 039177          356 LASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |...|++++|...|++..+.
T Consensus        99 ~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777776654

>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=98.36  E-value=1.5e-05  Score=59.05  Aligned_cols=94  Identities=13%  Similarity=-0.038  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+..+...+...|++++|...++...+.... +...+..+...|...|++++|...+++..+.. +.+...+..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            3444444445555555555555555444322 34444555555555555555555555554432 123344444455555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|...+++..
T Consensus        84 ~~~~~~~A~~~~~~~~   99 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGL   99 (118)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHH
Confidence            5555555555555554

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.35  E-value=6.3e-06  Score=62.75  Aligned_cols=104  Identities=10%  Similarity=0.043  Sum_probs=56.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----hhhHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL--CTQ----SSMFDE  386 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~----~~~~~~  386 (453)
                      .+..+...+.+.|++++|+..|+..++..+. +...|..+..+|.+.|++++|++.+++..+.+.  ..+    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            3445555566666666666666666555433 455566666666666666666666665554310  111    123445


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHH
Q 039177          387 TICGLCQRGLVRKALELLKQMADKDVSPGARVW  419 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  419 (453)
                      +...+...|++++|++.|++...  ..||..+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~--~~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS--EFRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--hCcCHHHH
Confidence            55566666666666666666553  24454433

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.35  E-value=4.2e-06  Score=65.13  Aligned_cols=94  Identities=7%  Similarity=-0.123  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLC  392 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  392 (453)
                      .+..+...+.+.|++++|...|+......+. +...|..+..+|...|++++|...|++....+ +.+...+..+..+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            3344445555555666666665555554433 45555555555555666666666665555543 223344455555555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      ..|++++|...|++..
T Consensus        98 ~~g~~~~A~~~~~~al  113 (142)
T 2xcb_A           98 QLGDLDGAESGFYSAR  113 (142)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHH
Confidence            6666666666655554

>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=98.33  E-value=1.8e-05  Score=59.95  Aligned_cols=95  Identities=8%  Similarity=0.002  Sum_probs=49.0

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          208 DYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLC  287 (453)
Q Consensus       208 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  287 (453)
                      .|..+...+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|+..++..++.. +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            3444555555555555555555555544322 44555555555555555555555555555432 123444445555555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 039177          288 KQNNVEAGIKMIACMEE  304 (453)
Q Consensus       288 ~~~~~~~a~~~~~~m~~  304 (453)
                      ..|++++|...|+...+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555555444

>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=98.32  E-value=4.4e-05  Score=56.49  Aligned_cols=18  Identities=17%  Similarity=0.187  Sum_probs=6.6

Q ss_pred             HHHHhcCCHHHHHHHHHH
Q 039177          319 QALCKVRELNRLRELVKE  336 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~  336 (453)
                      .+|...|++++|...++.
T Consensus        80 ~~~~~~~~~~~A~~~~~~   97 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEE   97 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHH
Confidence            333333333333333333

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.31  E-value=6.6e-06  Score=65.80  Aligned_cols=98  Identities=9%  Similarity=-0.034  Sum_probs=60.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...+..+...+.+.|++++|...|+...+... -+...|..+..+|.+.|++++|+..|+..++.... +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAP-ANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-cCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            44555556666666666666666666665431 14556666666666666666666666666665443 45566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 039177          356 LASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |...|++++|...|++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            66666666666666666554

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.29  E-value=7.2e-05  Score=70.10  Aligned_cols=165  Identities=9%  Similarity=-0.084  Sum_probs=70.8

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCC-CCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC-hhh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDG-IKPDIV----CYTMVLNGVIVQEDYVKAEELFDELLV----LGLVPD-VYT  278 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~----~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~~~-~~~  278 (453)
                      +..+...|.+.|++++|.+++..+...- ..++..    +.+.+-..+...|+.+.|..++.....    .+..+. ..+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            4455555555566666555555554320 011111    111111222233555555555554432    111111 223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CC-Cc-C--HH
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEEL----GSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWK--GI-VL-N--LQ  347 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~-~p-~--~~  347 (453)
                      +..+...|...|++++|..+++.+...    +-.+. ..++..++..|...|++++|..+++.....  .. .| .  ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            444555555555555555555544321    11111 234555555555555555555555544432  01 11 0  12


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      .+..+...+...|++++|...|.+..
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            33444444445555555555555443

>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=98.29  E-value=1.4e-05  Score=60.74  Aligned_cols=97  Identities=10%  Similarity=0.081  Sum_probs=56.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----hhhHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL--VPD----VYTYN  280 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~--~~~----~~~~~  280 (453)
                      ..+..+...+.+.|++++|++.|++..+..+. +...|..+..+|...|++++|++.++..++...  ..+    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~-~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPS-NITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            34556666677777777777777776665433 556666666667777777777776666654210  011    12344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      .+..++...|++++|++.|+...+
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh
Confidence            445555556666666666655554

>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=98.29  E-value=2.7e-05  Score=59.78  Aligned_cols=96  Identities=8%  Similarity=-0.162  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICG  390 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~  390 (453)
                      ...+..+...+...|++++|...|....+.... +...|..+..+|...|++++|...+++..+.+ +.+...+..+...
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            344444555555555555555555555444332 34455555555555555555555555554433 2233444445555


Q ss_pred             HHhCCCHHHHHHHHHHHh
Q 039177          391 LCQRGLVRKALELLKQMA  408 (453)
Q Consensus       391 ~~~~g~~~~A~~~~~~m~  408 (453)
                      |...|++++|...|++..
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555555544

>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=98.28  E-value=2e-05  Score=65.17  Aligned_cols=156  Identities=12%  Similarity=-0.051  Sum_probs=95.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---------------HHHH
Q 039177          250 GVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD---------------VITY  314 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---------------~~~~  314 (453)
                      .....|+++.+.+.|+.-.... ......+..+...+.+.|++++|...|+...+....-.               ...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (198)
T 2fbn_A           13 GRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCN   91 (198)
T ss_dssp             ---------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHH
Confidence            3334455555555544221110 11244566677788899999999999998887432111               2677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhC
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQR  394 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  394 (453)
                      ..+..+|.+.|++++|...++...+.... +...+..+..+|...|++++|...|++..+.. +.+...+..+...+...
T Consensus        92 ~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  169 (198)
T 2fbn_A           92 LNLATCYNKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKL  169 (198)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHH
Confidence            77888888888888888888888877544 67788888888888888888888888887764 23455666666666666


Q ss_pred             CCHHHHH-HHHHHHh
Q 039177          395 GLVRKAL-ELLKQMA  408 (453)
Q Consensus       395 g~~~~A~-~~~~~m~  408 (453)
                      |+.+++. ..+..|.
T Consensus       170 ~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          170 KEARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHHC----------
T ss_pred             HHHHHHHHHHHHHHh
Confidence            6666655 4444444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.25  E-value=1.4e-05  Score=60.20  Aligned_cols=89  Identities=11%  Similarity=-0.082  Sum_probs=41.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      ...+.+.|++++|...|+...+.... +...|..+..++...|++++|+..|++..+.+ +.+...+..+...|.+.|++
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            33444445555555555544444332 44444444445555555555555555444432 12233444444445555555


Q ss_pred             HHHHHHHHHHh
Q 039177          398 RKALELLKQMA  408 (453)
Q Consensus       398 ~~A~~~~~~m~  408 (453)
                      ++|+..+++..
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555444

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.24  E-value=1.7e-05  Score=58.17  Aligned_cols=96  Identities=7%  Similarity=-0.024  Sum_probs=44.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP--DVYTYNVYIN  284 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~--~~~~~~~li~  284 (453)
                      ..+..+...+...|++++|+..|++..+.... +...|..+..++...|++++|...+++..+.. +.  +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            33444445555555555555555555443222 33444444444555555555555555444432 11  2334444444


Q ss_pred             HHHhc-CCHHHHHHHHHHHHH
Q 039177          285 GLCKQ-NNVEAGIKMIACMEE  304 (453)
Q Consensus       285 ~~~~~-~~~~~a~~~~~~m~~  304 (453)
                      ++... |++++|.+.++...+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhh
Confidence            44444 444444444444444

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.24  E-value=5.5e-05  Score=58.74  Aligned_cols=94  Identities=11%  Similarity=0.020  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPD----VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMI  353 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li  353 (453)
                      .+..+...+...|++++|...|+...+.  .|+    ...+..+...|...|++++|...++...+.... +...+..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHHHH
Confidence            3344444444444444444444444442  233    234444444444555555555555444443222 344444444


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 039177          354 DGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       354 ~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .+|...|++++|...|++..+
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            445555555555555554444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.23  E-value=3.8e-05  Score=61.28  Aligned_cols=99  Identities=10%  Similarity=0.048  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      +...|..+...+...|++++|+..|++.++.. +.+...|..+..+|.+.|++++|...|+...+... -+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            44556666666777777777777777766643 23556666666667777777777777777666432 13556666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 039177          320 ALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +|.+.|++++|...|+...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777777777777777766665

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.23  E-value=2.3e-05  Score=60.82  Aligned_cols=96  Identities=9%  Similarity=-0.109  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                      .+..+...+.+.|++++|...|+....... .+...|..+..+|.+.|++++|...|+...+.... +...+..+..+|.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDH-YDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHH
Confidence            334445556666666666666666665432 24555666666666666666676666666665443 4555666666666


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 039177          358 SKGDIIEACGLLEEALNK  375 (453)
Q Consensus       358 ~~g~~~~A~~~~~~m~~~  375 (453)
                      ..|++++|...|+...+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            677777777776666554

>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=98.22  E-value=4.5e-05  Score=58.53  Aligned_cols=99  Identities=8%  Similarity=-0.092  Sum_probs=61.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 039177          275 DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMID  354 (453)
Q Consensus       275 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~  354 (453)
                      +...+..+...+...|++++|...|+...+... .+...+..+..+|...|++++|...++...+.... +...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            445555566666666666666666666655431 23556666666666666666666666666665443 5566666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 039177          355 GLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       355 ~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      +|...|++++|...|++..+.
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHHH
Confidence            677777777777776666543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.22  E-value=1.8e-05  Score=58.04  Aligned_cols=93  Identities=10%  Similarity=-0.080  Sum_probs=45.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHH
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT--QSSMFDETICGL  391 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~--~~~~~~~li~~~  391 (453)
                      +..+...+.+.|++++|...++...+.... +...+..+...|...|++++|...|++..+.. ..  +...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLDPE-ESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHH
Confidence            334444444555555555555544444322 34444555555555555555555555554432 11  234444455555


Q ss_pred             HhC-CCHHHHHHHHHHHh
Q 039177          392 CQR-GLVRKALELLKQMA  408 (453)
Q Consensus       392 ~~~-g~~~~A~~~~~~m~  408 (453)
                      ... |++++|.+.+++..
T Consensus        87 ~~~~~~~~~A~~~~~~~~  104 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAK  104 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHG
T ss_pred             HHHhCCHHHHHHHHHHHh
Confidence            555 55555555555554

>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=98.21  E-value=2.1e-05  Score=59.61  Aligned_cols=96  Identities=13%  Similarity=0.084  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----hhhHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL--CTQ----SSMFDE  386 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~----~~~~~~  386 (453)
                      .+..+...+...|++++|...|....+.... +...+..+...|...|++++|...+++......  .++    ..++..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            3444444455555555555555555444322 344455555555555555555555555444311  011    334445


Q ss_pred             HHHHHHhCCCHHHHHHHHHHHhh
Q 039177          387 TICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       387 li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +...|...|++++|.+.|++..+
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHH
Confidence            55555555555555555555553

>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=98.20  E-value=1.7e-05  Score=60.14  Aligned_cols=97  Identities=18%  Similarity=0.140  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CCC----hhhHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGL--VPD----VYTYN  280 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~--~~~----~~~~~  280 (453)
                      ..|..+...+...|++++|+..|++..+.... +...+..+...+...|++++|...++...+...  .++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            34555556666666666666666666554322 455555556666666666666666665544321  011    34444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      .+..+|...|++++|.+.|+...+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH
Confidence            555555555555555555555555

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.18  E-value=9.8e-05  Score=57.27  Aligned_cols=97  Identities=16%  Similarity=0.009  Sum_probs=48.7

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPD----IVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYN  280 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~  280 (453)
                      +...+..+...+.+.|++++|++.|++..+..  |+    ...|..+..+|...|++++|+..++...+.. +.+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            34445555555555566666666665555432  22    3444445555555555555555555554432 12334444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          281 VYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       281 ~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      .+..+|...|++++|...|+...+
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444455555555555555555444

>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=98.14  E-value=0.0013  Score=58.58  Aligned_cols=193  Identities=10%  Similarity=0.035  Sum_probs=144.8

Q ss_pred             HhcCChh-HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          217 VKKEKVF-DALGILNQMKSDGIKPDIVCYTMVLNGVIVQED----------YVKAEELFDELLVLGLVPDVYTYNVYING  285 (453)
Q Consensus       217 ~~~g~~~-~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~m~~~g~~~~~~~~~~li~~  285 (453)
                      .+.|.++ +|+++++.+...++. +..+|+.=-..+...+.          +++++.+++.+.... +-+..+|+.-...
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~-~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4556665 899999999987654 55666654444443333          678889999888754 3577788877777


Q ss_pred             HHhcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc---
Q 039177          286 LCKQN--NVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE-LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK---  359 (453)
Q Consensus       286 ~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~---  359 (453)
                      +.+.+  .+++++.+++.+.+...+ |...|+.-.-.+...|. ++++++.+..+++..+. |...|+.....+.+.   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhc
Confidence            77777  489999999999986543 77788877777778888 69999999999998877 888888777766655   


Q ss_pred             -----------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhC-----------CCHHHHHHHHHHHhhCCCCCCH
Q 039177          360 -----------GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQR-----------GLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       360 -----------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                                 +.++++++.+....... +-|...|+-+-..+.+.           +.++++++.++++.+  +.||.
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle--~~pd~  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE--LEPEN  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH--HCTTC
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh--hCccc
Confidence                       45889999999998865 44666676555555554           458899999999984  46664

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.12  E-value=1.9e-05  Score=62.33  Aligned_cols=96  Identities=13%  Similarity=-0.029  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC----CCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CChh
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKG----IVL-NLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLC-TQSS  382 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~-~~~~  382 (453)
                      ++..+...|...|++++|...++...+..    ..+ ....+..+...|...|++++|...+++..+.    +.. ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            44445555555555555555555544321    000 1234555555666666666666666655432    111 1123


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      .+..+...|...|++++|.+.+++..
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~  156 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHL  156 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            45555666667777777777766654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.10  E-value=4.4e-05  Score=57.41  Aligned_cols=94  Identities=6%  Similarity=-0.095  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh
Q 039177          279 YNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS  358 (453)
Q Consensus       279 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  358 (453)
                      +..+...+.+.|++++|...|+...+... .+...|..+..++...|++++|+..|+...+..+. +...+..+..+|..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            33444556666666666666666665431 14556666666666666777777666666665444 55566666666666


Q ss_pred             cCCHHHHHHHHHHHHH
Q 039177          359 KGDIIEACGLLEEALN  374 (453)
Q Consensus       359 ~g~~~~A~~~~~~m~~  374 (453)
                      .|++++|...+++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6777777776666654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.08  E-value=3.9e-05  Score=60.52  Aligned_cols=97  Identities=10%  Similarity=-0.008  Sum_probs=55.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-cCHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSK-PD----VITYNTLLQALCKVRELNRLRELVKEMKWK----GIV-LNLQ  347 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~  347 (453)
                      ++..+...|...|++++|.+.++...+.... .+    ..++..+...+...|++++|...++...+.    +.. ....
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            3444555555555555555555554431100 11    234556666666777777777776665543    111 1134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      ++..+...|...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            566677777778888888888777654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.08  E-value=1.1e-05  Score=64.38  Aligned_cols=61  Identities=21%  Similarity=0.102  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ..|..+..+|.+.|++++|+..+++..+.+ +.+...|..+..+|...|++++|...|++..
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al  124 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLL  124 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHH
Confidence            345555555555555555555555555543 2234445555555555555555555555555

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.06  E-value=0.00036  Score=65.27  Aligned_cols=192  Identities=9%  Similarity=-0.081  Sum_probs=136.8

Q ss_pred             CCcHHHHHHHHHHHHHCCCccCh----------------HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcC-CCcCh---
Q 039177          147 INRVGFAIEILNCMINDGFCVDG----------------KTCSLILSSVCEQRDLSSDELLGFVQEMKKLG-FCFGM---  206 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~~~~~p~~----------------~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g-~~~~~---  206 (453)
                      .|++++|++.|....+..-....                ..+..+...|...|++  +++.+.+..+...- ...+.   
T Consensus        17 ~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~   94 (434)
T 4b4t_Q           17 EKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAK--DKLREFIPHSTEYMMQFAKSKTV   94 (434)
T ss_dssp             HTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCH--HHHHHHHHHTHHHHHTSCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHHHHHccchHHH
Confidence            58899999999999885433221                1367788999999999  99999988876541 11111   


Q ss_pred             -hhHHHHHHHHHhcCChhHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----C
Q 039177          207 -VDYTNVIRSLVKKEKVFDALGILNQMKS----DGIKP-DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP-----D  275 (453)
Q Consensus       207 -~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~-----~  275 (453)
                       .+.+.+-..+...|+++.|.++++....    .+..+ -..++..+...|...|++++|..++.+....-...     .
T Consensus        95 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  174 (434)
T 4b4t_Q           95 KVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSL  174 (434)
T ss_dssp             HHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhH
Confidence             2233444445567899999999988764    22222 24577788999999999999999999876531111     2


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C-CC-C--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELG--S-KP-D--VITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~-~p-~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ..++..++..|...|++++|..+++......  + .| .  ...+..+...+...+++++|...|.+..+.
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~~  245 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFES  245 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            4467888899999999999999998876421  1 12 1  245667777788899999999999887764

>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=98.02  E-value=2.3e-05  Score=74.46  Aligned_cols=117  Identities=12%  Similarity=-0.004  Sum_probs=59.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +.+.|++++|.+.|++..+... .+...|..+..+|.+.|++++|+..++...+.... +...|..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHH
Confidence            3445555566555555555321 13455555556666666666666666666555433 455555666666666666666


Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHH--HHhCCCHHHHHHHHH
Q 039177          366 CGLLEEALNKGLCTQSSMFDETICG--LCQRGLVRKALELLK  405 (453)
Q Consensus       366 ~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~  405 (453)
                      .+.|++..+.. ..+...+..+..+  +.+.|++++|++.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            66666655542 1122233333333  555566666666655

>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=98.02  E-value=0.00011  Score=69.55  Aligned_cols=96  Identities=11%  Similarity=-0.018  Sum_probs=62.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICG  390 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~  390 (453)
                      ...|..+..+|.+.|++++|+..++..++.... +...|..+..+|...|++++|+..|++..+.. ..+...+..+...
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            356667777777777777777777777776544 66677777777777777777777777776653 2234556666667


Q ss_pred             HHhCCCHHHHHH-HHHHHh
Q 039177          391 LCQRGLVRKALE-LLKQMA  408 (453)
Q Consensus       391 ~~~~g~~~~A~~-~~~~m~  408 (453)
                      +.+.|+.+++.. .+..|.
T Consensus       395 ~~~~~~~~~a~~~~~~~~f  413 (457)
T 1kt0_A          395 QKKAKEHNERDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            777777666553 344443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.00  E-value=1.1e-05  Score=60.39  Aligned_cols=86  Identities=9%  Similarity=-0.060  Sum_probs=42.1

Q ss_pred             cCCHHHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          289 QNNVEAGIKMIACMEELGS-KP-DVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       289 ~~~~~~a~~~~~~m~~~~~-~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      .|++++|+..|++..+.+. .| +...+..+..+|.+.|++++|...|+...+..+. +...+..+..+|...|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHH
Confidence            3455555555555555321 01 2234555555555555555555555555554433 4445555555555555555555


Q ss_pred             HHHHHHHHC
Q 039177          367 GLLEEALNK  375 (453)
Q Consensus       367 ~~~~~m~~~  375 (453)
                      ..|++..+.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            555555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.96  E-value=0.00053  Score=51.66  Aligned_cols=22  Identities=5%  Similarity=-0.013  Sum_probs=8.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 039177          317 LLQALCKVRELNRLRELVKEMK  338 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~  338 (453)
                      +..+|.+.|++++|...|+.+.
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~  103 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVA  103 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            3333333333333333333333

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.95  E-value=0.0005  Score=51.82  Aligned_cols=92  Identities=11%  Similarity=0.024  Sum_probs=56.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC---HHHHHHHHHH
Q 039177          282 YINGLCKQNNVEAGIKMIACMEELGSKPDV---ITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN---LQTYSIMIDG  355 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~li~~  355 (453)
                      +...+...|++++|...|+.+.+.... +.   ..+..+..+|.+.|++++|...|+.+.+.... +   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            444556666777777776666653311 11   35555666666777777777777766665332 2   4556666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 039177          356 LASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |...|++++|...|+++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            77777777777777776654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.94  E-value=2.1e-05  Score=58.72  Aligned_cols=83  Identities=12%  Similarity=0.033  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHHCCC--CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHH
Q 039177          325 RELNRLRELVKEMKWKGI--VLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALE  402 (453)
Q Consensus       325 ~~~~~a~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  402 (453)
                      |++++|+..|+..++.+.  .-+...+..+..+|...|++++|...|++..+.. +-+...+..+..++.+.|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            444455555555444321  1123344444455555555555555555554432 1223344444445555555555555


Q ss_pred             HHHHHh
Q 039177          403 LLKQMA  408 (453)
Q Consensus       403 ~~~~m~  408 (453)
                      .+++..
T Consensus        83 ~~~~al   88 (117)
T 3k9i_A           83 LLLKII   88 (117)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555444

>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=97.93  E-value=0.00023  Score=67.22  Aligned_cols=108  Identities=7%  Similarity=-0.094  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc--------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVL--------------NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLC  378 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p--------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  378 (453)
                      .+..+...|.+.|++++|...|...++.....              ....|..+..+|.+.|++++|+..+++..+.. .
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            44555555556666666666666555542221              15788999999999999999999999999875 3


Q ss_pred             CChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          379 TQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       379 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      .+...|..+..+|...|++++|+..|++..+  +.|+.......+
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l  391 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQI  391 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TC----CHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            4677888899999999999999999999984  566554433333

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.91  E-value=2.9e-05  Score=70.27  Aligned_cols=148  Identities=11%  Similarity=-0.005  Sum_probs=77.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      ....+..+...+.+.|++++|...|++.+...  |+...       +...++.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            45566677777778888888888888876632  33221       222333333322211          126677777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH-HHhCCCHH
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICG-LCQRGLVR  398 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~~  398 (453)
                      +|.+.|++++|+..++..++.... +...|..+..+|...|++++|...|++..+.. .-+...+..+... ....+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888776544 67778888888888888888888888776542 1122333333333 23345566


Q ss_pred             HHHHHHHHHh
Q 039177          399 KALELLKQMA  408 (453)
Q Consensus       399 ~A~~~~~~m~  408 (453)
                      ++..+|..|.
T Consensus       317 ~a~~~~~~~l  326 (338)
T 2if4_A          317 KQKEMYKGIF  326 (338)
T ss_dssp             ----------
T ss_pred             HHHHHHHHhh
Confidence            7777777776

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.90  E-value=4.1e-05  Score=72.78  Aligned_cols=115  Identities=9%  Similarity=-0.010  Sum_probs=48.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 039177          253 VQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRE  332 (453)
Q Consensus       253 ~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  332 (453)
                      +.|++++|++.|++..+.. +.+...|..+..+|.+.|++++|.+.+++..+... .+...+..+..+|.+.|++++|..
T Consensus        18 ~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           18 KAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHH
Confidence            3444444444444444432 12234444444444555555555555544444321 133444445555555555555555


Q ss_pred             HHHHHHHCCCCcCHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 039177          333 LVKEMKWKGIVLNLQTYSIMIDG--LASKGDIIEACGLLE  370 (453)
Q Consensus       333 ~~~~~~~~~~~p~~~~~~~li~~--~~~~g~~~~A~~~~~  370 (453)
                      .|++..+.... +...+..+..+  +.+.|++++|++.++
T Consensus        96 ~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           96 DYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            55554443222 22223333222  444455555555554

>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=97.89  E-value=0.00015  Score=66.28  Aligned_cols=89  Identities=9%  Similarity=-0.082  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICG  390 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~  390 (453)
                      ..+|..+..+|.+.|++++|+..++..++.... +...|..+..+|...|++++|...|++..+.. ..+...+..+...
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            345666666667777777777777776665433 55666666677777777777777777666543 2234445555555


Q ss_pred             HHhCCCHHHHH
Q 039177          391 LCQRGLVRKAL  401 (453)
Q Consensus       391 ~~~~g~~~~A~  401 (453)
                      +...++.+++.
T Consensus       351 ~~~~~~~~~a~  361 (370)
T 1ihg_A          351 KQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555443

>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=97.87  E-value=0.0011  Score=64.20  Aligned_cols=181  Identities=10%  Similarity=-0.022  Sum_probs=143.5

Q ss_pred             HHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC----------hhHHHHHHHHHHhCCCCCCHHHHHHH
Q 039177          178 SVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK----------VFDALGILNQMKSDGIKPDIVCYTMV  247 (453)
Q Consensus       178 ~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~l  247 (453)
                      +..+.++.+ ++|++.++.+.... +-+..+|+.--..+...|+          ++++++.++.+.+..++ +..+|+.-
T Consensus        37 ~~~~~~~~~-eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR  113 (567)
T 1dce_A           37 QKRQAGELD-ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHR  113 (567)
T ss_dssp             HHHHTTCCS-HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHcCCCC-HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            344556665 78999999998876 3455668877777777777          89999999999988766 88889888


Q ss_pred             HHHHHhcC--CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 039177          248 LNGVIVQE--DYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQN-NVEAGIKMIACMEELGSKPDVITYNTLLQALCKV  324 (453)
Q Consensus       248 l~~~~~~g--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  324 (453)
                      .-++.+.+  +++++++.++.+.+.. .-+..+|+.-..+..+.| ..+++.+.++.+.+..+. |...|+.....+.+.
T Consensus       114 ~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l  191 (567)
T 1dce_A          114 CWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQL  191 (567)
T ss_dssp             HHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhh
Confidence            88888889  7799999999999876 357888888888888888 899999999999886543 667777776666653


Q ss_pred             --------------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH
Q 039177          325 --------------RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE  364 (453)
Q Consensus       325 --------------~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  364 (453)
                                    +.++++.+.+.......+. |...|.-+-..+.+.++.++
T Consensus       192 ~~~~~~~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          192 HPQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                          5578999999999887666 78888888888877776433

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.86  E-value=0.00022  Score=56.63  Aligned_cols=97  Identities=10%  Similarity=0.014  Sum_probs=53.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhC--------CC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSD--------GI---------KPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------~~---------~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ..+......+.+.|++++|+..|.+..+.        ..         +.+...|..+..+|.+.|++++|+..++..++
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            44566667777888888888887777653        00         00223444555555555555555555555544


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          270 LGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       270 ~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      .. +.+...|..+..+|...|++++|...|+...+
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            32 22344455555555555555555555555554

>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=97.85  E-value=0.00024  Score=65.04  Aligned_cols=91  Identities=5%  Similarity=-0.104  Sum_probs=64.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHH
Q 039177          275 DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMID  354 (453)
Q Consensus       275 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~  354 (453)
                      +...|..+..+|.+.|++++|...+++..+... .+...|..+..+|...|++++|...|+...+.... +...+..+..
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~  349 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLK  349 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            345667777778888888888888888777432 24567777788888888888888888887776444 5666667777


Q ss_pred             HHHhcCCHHHHHH
Q 039177          355 GLASKGDIIEACG  367 (453)
Q Consensus       355 ~~~~~g~~~~A~~  367 (453)
                      .+...++.+++.+
T Consensus       350 ~~~~~~~~~~a~k  362 (370)
T 1ihg_A          350 VKQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7666666665543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.84  E-value=7.9e-05  Score=70.54  Aligned_cols=133  Identities=4%  Similarity=-0.022  Sum_probs=94.3

Q ss_pred             HHHhcCCcchHHHHHHHHHHcC--CC----CCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHH
Q 039177           89 TLAENSQFCDISSVLDHIEKRE--NF----ETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIN  162 (453)
Q Consensus        89 ~~~~~~~~~~a~~~~~~~~~~~--~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~  162 (453)
                      .+...|++++|+.++++..+..  -+    +....+++.|...|...|++++|..++++           +++++.....
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~-----------aL~i~~~~lG  386 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARR-----------MVDGYMKLYH  386 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHHSC
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHHcC
Confidence            4567899999999998887541  11    12356899999999999999999999877           6666666554


Q ss_pred             CCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----C--CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh
Q 039177          163 DGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----G--FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS  234 (453)
Q Consensus       163 ~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  234 (453)
                      ...+-...+++.|...|...|+.  ++|..++++..+.     |  .+....+.+.+-.++...+.+++|+.+|..+++
T Consensus       387 ~~Hp~~a~~l~nLa~~~~~~G~~--~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          387 HNNAQLGMAVMRAGLTNWHAGHI--EVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44333455788888888888888  8888877766542     3  112233455666666677777777777777764

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.76  E-value=0.00054  Score=53.42  Aligned_cols=61  Identities=13%  Similarity=0.036  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHC-------CCCcCHHHH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWK-------GIVLNLQTY----SIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~p~~~~~----~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .|+.+..++.+.|++++|+..++..++.       ... +...|    .....++...|++++|+..|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5555555555555555555555555543       222 23344    4555555555555555555555543

>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=97.75  E-value=0.0018  Score=62.75  Aligned_cols=175  Identities=9%  Similarity=-0.023  Sum_probs=133.6

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQED----------YVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~----------~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      ...++|++.++++.+..+. +..+|+.--.++...|+          ++++++.++.+.+.. +-+..+|+.-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            3346789999999987655 66777776666766676          899999999998865 34677888877788888


Q ss_pred             C--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-------
Q 039177          290 N--NVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR-ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK-------  359 (453)
Q Consensus       290 ~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~-------  359 (453)
                      +  +++++.+.++.+.+...+ +...|+.-..++.+.| .++++++.+..+++..+. |...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccc
Confidence            8  779999999999986543 7778888777778888 889999999999888777 888888877776663       


Q ss_pred             -------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHH
Q 039177          360 -------GDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRK  399 (453)
Q Consensus       360 -------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  399 (453)
                             +.++++++.+++....+ +-+...|..+-..+.+.|+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                   55788888888887764 3456667766666666666443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.72  E-value=0.00067  Score=52.91  Aligned_cols=111  Identities=14%  Similarity=0.077  Sum_probs=79.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc------C-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWKGIVL------N-----LQTYSIMIDGLASKGDIIEACGLLEEALNK-----GL  377 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p------~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~  377 (453)
                      +......+.+.|++++|+..|+..++.....      +     ...|..+..++.+.|++++|+..+++..+.     .+
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~   93 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGEL   93 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccC
Confidence            4444555666677777777777666653221      2     338999999999999999999999999875     11


Q ss_pred             CCC-hhhH----HHHHHHHHhCCCHHHHHHHHHHHhh-----CCCCCCHHHHHHHHh
Q 039177          378 CTQ-SSMF----DETICGLCQRGLVRKALELLKQMAD-----KDVSPGARVWEALLL  424 (453)
Q Consensus       378 ~~~-~~~~----~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~~ll~  424 (453)
                      .|+ ...|    .....++...|++++|+..|++..+     .|+.+........+.
T Consensus        94 ~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~  150 (159)
T 2hr2_A           94 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAI  150 (159)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHH
T ss_pred             CCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence            444 4456    7888899999999999999999864     466665555544443

>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=97.69  E-value=0.0022  Score=49.17  Aligned_cols=110  Identities=14%  Similarity=-0.047  Sum_probs=56.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHH
Q 039177          256 DYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK----VRELNRLR  331 (453)
Q Consensus       256 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~  331 (453)
                      ++++|...|++..+.| .++..    +-..|...+..++|.+.|+...+.|   +...+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4555666666555554 12221    4444444455555555555555542   44455555555554    45555555


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKG  376 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  376 (453)
                      ..|+...+.|   +...+..|...|..    .++.++|...|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555555543   34445555555555    455555555555555544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.67  E-value=0.00017  Score=65.18  Aligned_cols=152  Identities=11%  Similarity=-0.002  Sum_probs=85.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...+..+...+.+.|++++|...|+...+.  .|+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            455667777778888888888888887763  244332       223333444332221          1378889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch----hcchh
Q 039177          356 LASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSS----VSKLD  431 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~----~~~~~  431 (453)
                      |.+.|++++|+..+++..+.. ..+...|..+..+|...|++++|...|++..  .+.|+.......+..+    ....+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al--~l~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQ--KYAPDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTT--C------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHCCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998865 3466788899999999999999999999987  4566654444333333    23334


Q ss_pred             hHHHHHHHHHHhhhcCCC
Q 039177          432 FVNTSFIRLVDQILNTPC  449 (453)
Q Consensus       432 ~~~~~~~~~~~~~~~~p~  449 (453)
                      .+...+.++++....+|.
T Consensus       317 ~a~~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          317 KQKEMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHhhCCCCCCCC
Confidence            444556666666555543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.67  E-value=0.00016  Score=68.50  Aligned_cols=98  Identities=8%  Similarity=0.009  Sum_probs=57.8

Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----C--CCcChhhHHHHHHHHHhcCChhHHHHHHHHHHh-----CCC
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----G--FCFGMVDYTNVIRSLVKKEKVFDALGILNQMKS-----DGI  237 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~  237 (453)
                      .+++.|..+|...|++  ++|..++++..+.     |  .+....+++.|...|...|++++|+.++++..+     .|.
T Consensus       352 ~~~~nLa~~y~~~g~~--~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~  429 (490)
T 3n71_A          352 RLLSIASEVLSYLQAY--EEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGP  429 (490)
T ss_dssp             HHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHHHHHHHHhcCH--HHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4677777777777877  7777777665432     2  112234577777777777777777777766653     122


Q ss_pred             C-C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          238 K-P-DIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       238 ~-~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      . | ...+.+.+-.++...+.+++|+.+|..+.+
T Consensus       430 ~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          430 SHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1 1 222334444455555666666666665543

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.64  E-value=0.0027  Score=48.65  Aligned_cols=110  Identities=10%  Similarity=-0.051  Sum_probs=51.9

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHH
Q 039177          291 NVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEAC  366 (453)
Q Consensus       291 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~  366 (453)
                      +.++|.+.|+...+.| .++..    |...|...+..++|.+.|+...+.|   +...+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            3445555555555444 12221    3344444444555555555555443   34444445555544    45555555


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHHHHHHhhCC
Q 039177          367 GLLEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALELLKQMADKD  411 (453)
Q Consensus       367 ~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  411 (453)
                      ..|++..+.|   +...+..|-..|..    .++.++|..+|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555555443   23334444444444    455555555555554443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.59  E-value=8.4e-05  Score=54.45  Aligned_cols=64  Identities=14%  Similarity=0.016  Sum_probs=39.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+..+...+.+.|++++|...|+...+.... +...+..+..+|.+.|++++|+..+++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344555566666666666666666666655433 5556666666666666666666666666554

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.48  E-value=0.00075  Score=49.79  Aligned_cols=78  Identities=13%  Similarity=0.062  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          295 GIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       295 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      +...|+...+... .+...+..+...|...|++++|...|+...+.... +...|..+..+|...|++++|...|++..+
T Consensus         4 a~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQGT-DNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTTC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444321 13444555555555555555555555555544332 344455555555555555555555554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.48  E-value=0.0016  Score=45.35  Aligned_cols=62  Identities=18%  Similarity=0.128  Sum_probs=31.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+..+...+...|++++|...++...+.... +...+..+..+|...|++++|...|++..+.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            4444444555555555555555555444322 3444555555555555555555555555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.42  E-value=0.00021  Score=52.28  Aligned_cols=63  Identities=14%  Similarity=0.073  Sum_probs=35.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          277 YTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       277 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ..+..+...+.+.|++++|...|+...+... .+...+..+..+|.+.|++++|...++...+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3444555555556666666666655555321 13455555556666666666666666665554

>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=97.39  E-value=0.00023  Score=55.38  Aligned_cols=71  Identities=7%  Similarity=-0.150  Sum_probs=38.9

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVREL----------NRLRELVKEMKWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~----------~~a~~~~~~~~~~~~~p~~~~~~~li~~~  356 (453)
                      .+.+.+++|.+.++...+... -+...|..+..++.+.+++          ++|+..|++.++..+. +...|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            344556666666666665432 1455666666666665543          3555555555555443 445555555555


Q ss_pred             Hhc
Q 039177          357 ASK  359 (453)
Q Consensus       357 ~~~  359 (453)
                      ...
T Consensus        91 ~~l   93 (158)
T 1zu2_A           91 TSF   93 (158)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.37  E-value=0.0027  Score=44.07  Aligned_cols=77  Identities=14%  Similarity=0.065  Sum_probs=36.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHH
Q 039177          278 TYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGL  356 (453)
Q Consensus       278 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~  356 (453)
                      .+..+...+...|++++|...|+...+... .+...+..+..+|.+.|++++|...++...+.... +...+..+..++
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~   87 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            344444445555555555555555444321 13344555555555555555555555555544322 334444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.36  E-value=0.0027  Score=46.71  Aligned_cols=77  Identities=18%  Similarity=0.003  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          330 LRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       330 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      |...|+...+.... +...+..+...|...|++++|...|++..+.+ ..+...|..+...|...|++++|...|++..
T Consensus         4 a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444443322 44445555555555555555555555554432 1223344444555555555555555555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.25  E-value=0.0013  Score=47.11  Aligned_cols=62  Identities=16%  Similarity=0.031  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          311 VITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       311 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      ...+..+...|.+.|++++|+..|+...+.... +...|..+..+|...|++++|.+.|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344555555555556666666655555555433 34455555555555666666655555544

>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=97.20  E-value=0.0012  Score=51.46  Aligned_cols=97  Identities=12%  Similarity=0.005  Sum_probs=52.2

Q ss_pred             cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHHCCCCCChhhHHHHHHHHHh
Q 039177          219 KEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDY----------VKAEELFDELLVLGLVPDVYTYNVYINGLCK  288 (453)
Q Consensus       219 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~----------~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~  288 (453)
                      .+.+++|++.++...+..+. +...|..+..++...+++          ++|+..|++.++.. +.+..+|..+..+|..
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~-~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~   92 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   92 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHH
Confidence            34455555666555554433 555555555555555443          36666666655543 1234455556666655


Q ss_pred             c-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          289 Q-----------NNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       289 ~-----------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      .           |++++|.+.|++..+.  .|+...|...+.
T Consensus        93 lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           93 FAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             hcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            4           3666677766666663  455555444444

>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=0.0026  Score=45.55  Aligned_cols=63  Identities=8%  Similarity=0.034  Sum_probs=35.0

Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          205 GMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELL  268 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  268 (453)
                      +...+..+...|.+.|++++|++.|++..+..+. +...|..+..+|...|++++|.+.|++.+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3445555555666666666666666655554332 34455555555556666666665555544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.77  E-value=0.03  Score=50.15  Aligned_cols=73  Identities=15%  Similarity=0.064  Sum_probs=51.5

Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHH
Q 039177          344 LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWE  420 (453)
Q Consensus       344 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  420 (453)
                      .+..+|.++...+...|++++|...++++...+  |+...|..+-..+.-.|++++|.+.|++..  .+.|...||.
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Al--rL~P~~~t~~  347 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAF--NLRPGANTLY  347 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH--HHSCSHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH--hcCCCcChHH
Confidence            366677777666666688888888888877765  555556666667777788888888887766  3466666654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.62  E-value=0.0069  Score=42.91  Aligned_cols=55  Identities=16%  Similarity=0.183  Sum_probs=26.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQ-TYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+.+.|++++|...|+...+.... +.. .+..+..+|...|++++|.+.|++..+.
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344445555555555555444322 333 4444555555555555555555555443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.59  E-value=0.045  Score=55.57  Aligned_cols=154  Identities=14%  Similarity=0.061  Sum_probs=77.8

Q ss_pred             HHHhcCChhHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHH
Q 039177          215 SLVKKEKVFDALG-ILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVE  293 (453)
Q Consensus       215 ~~~~~g~~~~a~~-~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~  293 (453)
                      .....+++++|.+ ++..+.      +......++..+.+.|..+.|.++.++-.            .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHH
Confidence            3345666666665 432111      02222556666666777777665542111            1123345667777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          294 AGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       294 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      +|.++.+.+      .+...|..+...+.+.++++.|.+.|..+..         |..+...|...|+.+...++-+...
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            776664332      3556777777777777777777777765532         2233333344455554444444443


Q ss_pred             HCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          374 NKGLCTQSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       374 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      ..|.      ++.-..+|.+.|++++|++++.++
T Consensus       735 ~~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          735 TTGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HcCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            3331      222233344444555554444443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.57  E-value=0.0062  Score=56.59  Aligned_cols=95  Identities=4%  Similarity=-0.102  Sum_probs=67.1

Q ss_pred             hcCCcchHHHHHHHHHHcC--CCCC----CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCC
Q 039177           92 ENSQFCDISSVLDHIEKRE--NFET----PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGF  165 (453)
Q Consensus        92 ~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  165 (453)
                      ..|++++|..++++..+..  -+.+    -..+++.|..+|...|++++|..++++           ++++++.......
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~-----------aL~i~~~~lG~~H  378 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQK-----------IIKPYSKHYPVYS  378 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHHSCSSC
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHHcCCCC
Confidence            3678899999999887631  1222    246899999999999999999999877           5556555544333


Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKK  199 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~  199 (453)
                      +-...+++.|...|...|+.  ++|..++++..+
T Consensus       379 p~~a~~l~nLa~~~~~qg~~--~eA~~~~~~Al~  410 (433)
T 3qww_A          379 LNVASMWLKLGRLYMGLENK--AAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhccCH--HHHHHHHHHHHH
Confidence            22344677777777777777  777777766544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.48  E-value=0.1  Score=46.66  Aligned_cols=67  Identities=7%  Similarity=-0.094  Sum_probs=47.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          273 VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKG  341 (453)
Q Consensus       273 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  341 (453)
                      ..+..++.++...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+.+....+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~  340 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLR  340 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            3456666666666666678888888887777754  666666666777777788888888777777663

>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=96.47  E-value=0.0098  Score=55.30  Aligned_cols=101  Identities=7%  Similarity=0.013  Sum_probs=71.7

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcC--CCCC----CHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHH
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRE--NFET----PEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNC  159 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~  159 (453)
                      .+..+.+.|++++|..++++..+..  -+.+    -..+++.|...|...|++++|..++++           ++++++.
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~-----------~L~i~~~  361 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTR-----------TMEPYRI  361 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHH-----------HHHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHH-----------HHHhHHH
Confidence            3556677899999999999988641  1222    246899999999999999999999876           5555555


Q ss_pred             HHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHH
Q 039177          160 MINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKK  199 (453)
Q Consensus       160 m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~  199 (453)
                      ......+-...+++.|...|...|+.  ++|..++++..+
T Consensus       362 ~lg~~Hp~~a~~l~nLa~~~~~~g~~--~eA~~~~~~Al~  399 (429)
T 3qwp_A          362 FFPGSHPVRGVQVMKVGKLQLHQGMF--PQAMKNLRLAFD  399 (429)
T ss_dssp             HSCSSCHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHH
T ss_pred             HcCCCChHHHHHHHHHHHHHHhcCCH--HHHHHHHHHHHH
Confidence            54433333345677777777777777  777777666543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.43  E-value=0.069  Score=54.22  Aligned_cols=129  Identities=17%  Similarity=0.187  Sum_probs=82.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ  289 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~  289 (453)
                      ..++..+.+.|.++.|+++.+.-.            .-.......|+++.|.++.+.+      .+...|..+...+.+.
T Consensus       633 ~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~  694 (814)
T 3mkq_A          633 TKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASLQR  694 (814)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHc
Confidence            677777888888888887653211            1133455678888888875433      4678888888888889


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHH
Q 039177          290 NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLL  369 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  369 (453)
                      ++++.|.+.|..+..         |..+...|...|+.+...++-+.....|.      ++....+|.+.|++++|.+++
T Consensus       695 ~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          695 FNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             TCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHH
Confidence            999988888888754         44555555666666666555555444431      122333444555555555555


Q ss_pred             HH
Q 039177          370 EE  371 (453)
Q Consensus       370 ~~  371 (453)
                      .+
T Consensus       760 ~~  761 (814)
T 3mkq_A          760 IK  761 (814)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.42  E-value=0.0051  Score=57.19  Aligned_cols=85  Identities=12%  Similarity=-0.053  Sum_probs=48.5

Q ss_pred             CCcHHHHHHHHHHHHH---CCCccC----hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-----C--CCcChhhHHHH
Q 039177          147 INRVGFAIEILNCMIN---DGFCVD----GKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-----G--FCFGMVDYTNV  212 (453)
Q Consensus       147 ~~~~~~a~~~~~~m~~---~~~~p~----~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-----g--~~~~~~~~~~l  212 (453)
                      .|++++|+.++++.+.   .-+.|+    ..+++.+..+|...|++  ++|..++++..+.     |  .+-...+++.|
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~--~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  388 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDW--EGALKYGQKIIKPYSKHYPVYSLNVASMWLKL  388 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCH--HHHHHHHHHHHHHHHHHcCCCChHHHHHHHHH
Confidence            4566777776666554   111122    24566667777777776  6666666665432     2  11123346666


Q ss_pred             HHHHHhcCChhHHHHHHHHHH
Q 039177          213 IRSLVKKEKVFDALGILNQMK  233 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~  233 (453)
                      ...|...|++++|+.++++..
T Consensus       389 a~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          389 GRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHHHHHHHH
Confidence            666666666666666666654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.41  E-value=0.18  Score=37.38  Aligned_cols=64  Identities=20%  Similarity=0.115  Sum_probs=33.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCC
Q 039177          349 YSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       349 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  413 (453)
                      .+..++.....|+-|.-.++..++.. +..|+....-.+..+|.+.|+..+|.+++.+..++|++
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            34444555555555555555555422 22445555555555666666666666666665555543

>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=96.39  E-value=0.034  Score=51.66  Aligned_cols=91  Identities=11%  Similarity=-0.119  Sum_probs=55.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCC---CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-Cc-CHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELG---SKPD----VITYNTLLQALCKVRELNRLRELVKEMKWK-----GI-VL-NLQT  348 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~---~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~-~p-~~~~  348 (453)
                      +..+.+.|++++|..++++..+..   +.|+    ..+++.+..+|...|++++|+.++++++..     |. .| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            344556677777777777766421   1122    246677777777777777777777765532     21 12 2345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 039177          349 YSIMIDGLASKGDIIEACGLLEEAL  373 (453)
Q Consensus       349 ~~~li~~~~~~g~~~~A~~~~~~m~  373 (453)
                      ++.|...|...|++++|..++++..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            6667777777777777777776654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.27  E-value=0.015  Score=41.13  Aligned_cols=57  Identities=19%  Similarity=0.232  Sum_probs=32.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIV-CYTMVLNGVIVQEDYVKAEELFDELLVL  270 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~  270 (453)
                      ...+.+.|++++|++.|++..+.... +.. .|..+..+|...|++++|...|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34455566666666666666554322 344 5555566666666666666666666553

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.22  E-value=0.021  Score=43.89  Aligned_cols=63  Identities=25%  Similarity=0.145  Sum_probs=27.2

Q ss_pred             CHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          345 NLQTYSIMIDGLASKG---DIIEACGLLEEALNKGLCT--QSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      +..+.-.+..++++.+   ++++++.+|++..+.+ .|  ....+-.|..+|.+.|++++|.++++.+.
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 SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLL   98 (152)
T ss_dssp             CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            4444444444444444   3334444444444432 12  12223333344445555555555555544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.13  E-value=0.29  Score=42.04  Aligned_cols=95  Identities=15%  Similarity=0.079  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhc-CCHHHH
Q 039177          223 FDALGILNQMKSDGIK-PDIVCYTMVLNGVIVQ-----EDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQ-NNVEAG  295 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-~~~~~a  295 (453)
                      ..|...+++..+.... .+...|..+...|.+.     |+.++|.+.|++.++.+..-+..++......++.. |+.+++
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            4555555555554211 0244666666666663     67777777777776643211355555566666663 667777


Q ss_pred             HHHHHHHHHCCCC--CCHHHHHHH
Q 039177          296 IKMIACMEELGSK--PDVITYNTL  317 (453)
Q Consensus       296 ~~~~~~m~~~~~~--p~~~~~~~l  317 (453)
                      .+.+++.......  |+....+.+
T Consensus       260 ~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          260 DEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCChhHHHHH
Confidence            7777777665544  554444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.10  E-value=0.2  Score=39.48  Aligned_cols=99  Identities=12%  Similarity=0.113  Sum_probs=54.6

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 039177          251 VIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRL  330 (453)
Q Consensus       251 ~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a  330 (453)
                      ....|+++.|.++.+.+      .+...|..+.......|+++-|.+.|.....         +..+.-.|.-.|+.+..
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            34556666666665544      3455666666666666666666666666543         34444455555665555


Q ss_pred             HHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          331 RELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLE  370 (453)
Q Consensus       331 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  370 (453)
                      .++-+.....|-      ++.-...+...|+++++.++|.
T Consensus        80 ~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           80 SKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHH
Confidence            555444444431      2333444455566666666664

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.02  E-value=0.13  Score=35.90  Aligned_cols=65  Identities=11%  Similarity=0.004  Sum_probs=37.2

Q ss_pred             CHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          310 DVITYNTLLQALCKVRE---LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       310 ~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      |...+..+..++...++   .++|..++++.++.... +......+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            44455555555543333   46666666666665444 5555556666666666666666666666554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.81  E-value=0.14  Score=35.67  Aligned_cols=46  Identities=13%  Similarity=0.055  Sum_probs=20.5

Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV  269 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  269 (453)
                      ++|..++++..+..+. +......+...+.+.|++++|+..|+.+++
T Consensus        26 ~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           26 DEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444444444443322 334444444444444444444444444444

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.47  E-value=0.078  Score=37.96  Aligned_cols=61  Identities=21%  Similarity=0.142  Sum_probs=28.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCC------CCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKG------LCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      -+-.|...+.+.|+++.|...|+...+.-      -.+...++..+..+|.+.|++++|..++++..
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al   73 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLL   73 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33444444445555555555554443320      11233345555555555555555555555554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.04  E-value=0.35  Score=37.10  Aligned_cols=81  Identities=15%  Similarity=0.020  Sum_probs=42.8

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCc--CHHHHHHHHHHHHhcCCHHHHHH
Q 039177          293 EAGIKMIACMEELGSKPDVITYNTLLQALCKVR---ELNRLRELVKEMKWKGIVL--NLQTYSIMIDGLASKGDIIEACG  367 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~  367 (453)
                      ..+.+-|.+..+.|. ++..+.-.+.-++++.+   +.++++.+++++.+.+ .|  +...+-.|.-+|.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            334444444444333 45555555555555555   4446666666665553 12  23344445555566666666666


Q ss_pred             HHHHHHHC
Q 039177          368 LLEEALNK  375 (453)
Q Consensus       368 ~~~~m~~~  375 (453)
                      .++.+.+.
T Consensus        93 y~~~lL~i  100 (152)
T 1pc2_A           93 YVRGLLQT  100 (152)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            66666554

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.95  E-value=0.35  Score=36.75  Aligned_cols=54  Identities=9%  Similarity=0.044  Sum_probs=32.1

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 039177          290 NNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL  344 (453)
Q Consensus       290 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  344 (453)
                      ++.++|.++|+.+.+..-+. ...|....+.-.+.|+++.|.+++...+..+.+|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            56666666666665542222 4455555555566666677777666666666553

>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=94.94  E-value=0.27  Score=42.19  Aligned_cols=85  Identities=14%  Similarity=0.096  Sum_probs=49.3

Q ss_pred             HHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc-CCH
Q 039177          292 VEAGIKMIACMEELGSKPD---VITYNTLLQALCKV-----RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK-GDI  362 (453)
Q Consensus       292 ~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~-g~~  362 (453)
                      ...|...+++..+.  .|+   -..|..+...|.+.     |+.++|.+.|++.++.+..-+..++....+.++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34555555555552  344   33566666666663     66666666666666654432355555566666653 666


Q ss_pred             HHHHHHHHHHHHCCCC
Q 039177          363 IEACGLLEEALNKGLC  378 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~  378 (453)
                      ++|.+.+++.......
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            6666666666665444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.86  E-value=0.85  Score=33.94  Aligned_cols=140  Identities=12%  Similarity=-0.019  Sum_probs=78.6

Q ss_pred             HHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccCh
Q 039177           90 LAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDG  169 (453)
Q Consensus        90 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  169 (453)
                      +.-.|..+++.++.....+++    +..-+|=+|--....-+-+-..++++.+-+                     -.|.
T Consensus        17 ~ildG~v~qGveii~k~~~ss----ni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---------------------iFDi   71 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS----TKSEYNWFICNLLESIDCRYMFQVLDKIGS---------------------YFDL   71 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS----CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---------------------GSCG
T ss_pred             HHHhhhHHHHHHHHHHHcCCC----CccccceeeeecchhhchhHHHHHHHHHhh---------------------hcCc
Confidence            344688899999999888763    344455455555555555555555555332                     1221


Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLN  249 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~  249 (453)
                                ...+++  ......+-.   .|  .+.......++.....|+-++-.+++..+.. +.+|+....-.+..
T Consensus        72 ----------s~C~Nl--KrVi~C~~~---~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~  133 (172)
T 1wy6_A           72 ----------DKCQNL--KSVVECGVI---NN--TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIAN  133 (172)
T ss_dssp             ----------GGCSCT--HHHHHHHHH---TT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHH
T ss_pred             ----------HhhhcH--HHHHHHHHH---hc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHH
Confidence                      233333  333332211   11  2233444555666666777777777766433 23445666666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC
Q 039177          250 GVIVQEDYVKAEELFDELLVLGL  272 (453)
Q Consensus       250 ~~~~~g~~~~a~~~~~~m~~~g~  272 (453)
                      +|.+.|+..++.+++.+.-+.|+
T Consensus       134 Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          134 ALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhcchhhHHHHHHHHHHhhh
Confidence            77777777777777777766664

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=94.84  E-value=0.37  Score=34.31  Aligned_cols=19  Identities=16%  Similarity=0.230  Sum_probs=7.2

Q ss_pred             HHHHHHhcCCHHHHHHHHH
Q 039177          247 VLNGVIVQEDYVKAEELFD  265 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~  265 (453)
                      |...+.+.|++..|...|+
T Consensus        11 lG~~~~~~~~y~~A~~W~~   29 (104)
T 2v5f_A           11 LGKVAYTEADYYHTELWME   29 (104)
T ss_dssp             HHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHccchHHHHHHHH
Confidence            3333333333333333333

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.79  E-value=1.2  Score=35.18  Aligned_cols=100  Identities=10%  Similarity=0.094  Sum_probs=53.2

Q ss_pred             HHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHH
Q 039177          215 SLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEA  294 (453)
Q Consensus       215 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~  294 (453)
                      ...+.|+++.|.++.+.+.      +...|..|.......|+++-|++.|.....         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            3345566666666655541      555666666666666666666666655422         2334444555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 039177          295 GIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVK  335 (453)
Q Consensus       295 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  335 (453)
                      ...+-+.....| .     ++.....+...|+++++.++|.
T Consensus        79 L~kla~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           79 LSKMQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HHHHHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHH
Confidence            554444443332 1     3444445555566666666653

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.49  E-value=0.17  Score=37.34  Aligned_cols=82  Identities=21%  Similarity=0.113  Sum_probs=47.4

Q ss_pred             CHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHCCCCC--ChhhHHHHHHHHHhCCCHHHH
Q 039177          326 ELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIE---ACGLLEEALNKGLCT--QSSMFDETICGLCQRGLVRKA  400 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~A  400 (453)
                      .+..+.+-|......|. ++..+--.+..++.+.....+   ++.++++....+ .|  .....-.|..++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            34445555554444443 455565566666666665554   666666665543 12  233344455677777777777


Q ss_pred             HHHHHHHhh
Q 039177          401 LELLKQMAD  409 (453)
Q Consensus       401 ~~~~~~m~~  409 (453)
                      .++++.+++
T Consensus        94 ~~~~~~lL~  102 (126)
T 1nzn_A           94 LKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777777763

>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=93.48  E-value=0.84  Score=34.70  Aligned_cols=112  Identities=14%  Similarity=0.097  Sum_probs=64.3

Q ss_pred             ChhhHHHHHHHHHhcCCh------hHHHHHHHHHHhCCCCCCH-HHHHHHHH------HHHhcCCHHHHHHHHHHHHHCC
Q 039177          205 GMVDYTNVIRSLVKKEKV------FDALGILNQMKSDGIKPDI-VCYTMVLN------GVIVQEDYVKAEELFDELLVLG  271 (453)
Q Consensus       205 ~~~~~~~li~~~~~~g~~------~~a~~~~~~m~~~~~~~~~-~~~~~ll~------~~~~~g~~~~a~~~~~~m~~~g  271 (453)
                      |..+|-..+...-+.|+.      +...++|++.... ++|+. ..|...+.      .+...++.++|.++|+.+++.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            444455555555555555      5555566555542 23321 11111111      1123378888888888887653


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 039177          272 LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQ  319 (453)
Q Consensus       272 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  319 (453)
                      -+. ...|.....--.+.|+++.|.+++...+..+.+| ...+...|+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~  136 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALR  136 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHH
Confidence            333 6666666666678899999999999888877654 334444443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.47  E-value=0.0001  Score=67.29  Aligned_cols=235  Identities=12%  Similarity=0.133  Sum_probs=123.5

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHH
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILN  158 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~  158 (453)
                      |+..|..+|.+..+.|.+++-...+.-.++.   ..+..+=+.|+-+|++.++..+-.+++.                  
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~---~ke~~IDteLi~ayAk~~rL~elEefl~------------------  140 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELEEFIN------------------  140 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT---CCSTTTTHHHHHHHHTSCSSSTTTSTTS------------------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---hcccccHHHHHHHHHhhCcHHHHHHHHc------------------
Confidence            5556667777777777777766666555544   2334455667777777777655322211                  


Q ss_pred             HHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCC
Q 039177          159 CMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIK  238 (453)
Q Consensus       159 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  238 (453)
                             .||..-...+..-|...|..  +.|.-+|..         +.-|.-|...+.+.|++..|.+.-++.      
T Consensus       141 -------~~N~A~iq~VGDrcf~e~lY--eAAKilys~---------isN~akLAstLV~L~~yq~AVdaArKA------  196 (624)
T 3lvg_A          141 -------GPNNAHIQQVGDRCYDEKMY--DAAKLLYNN---------VSNFGRLASTLVHLGEYQAAVDGARKA------  196 (624)
T ss_dssp             -------CCSSSCTHHHHHHHHHSCCS--TTSSTTGGG---------SCCCTTTSSSSSSCSGGGSSTTTTTTC------
T ss_pred             -------CCCcccHHHHHHHHHHccCH--HHHHHHHHh---------CccHHHHHHHHHHHHHHHHHHHHHHhc------
Confidence                   24555555555556666655  444333322         222333444445555555554432222      


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 039177          239 PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLL  318 (453)
Q Consensus       239 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  318 (453)
                      -+..||.-+-.+|...+.+..|...--.++-     .......++..|-..|.+++.+.+++.-... -.....+|+-|.
T Consensus       197 ns~ktWKeV~~ACvd~~EfrLAqicGLniIv-----hadeL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELa  270 (624)
T 3lvg_A          197 NSTRTWKEVCFACVDGKEFRLAQMCGLHIVV-----HADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELA  270 (624)
T ss_dssp             CSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC-----CSSCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHH
T ss_pred             CChhHHHHHHHHHhCchHHHHHHHhcchhcc-----cHHHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHH
Confidence            2556777777777777777766554444332     1122234555677777777777777666532 123556677776


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC-CCC------cCHHHHHHHHHHHHhcCCHHHH
Q 039177          319 QALCKVRELNRLRELVKEMKWK-GIV------LNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~-~~~------p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      -.|++- +.++..+.++..-.+ ++.      -....|.-++-.|.+-.++|.|
T Consensus       271 ILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA  323 (624)
T 3lvg_A          271 ILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  323 (624)
T ss_dssp             HHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHH
Confidence            666664 333333333321111 111      0233455555555555555544

>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=92.49  E-value=0.63  Score=42.45  Aligned_cols=66  Identities=12%  Similarity=0.142  Sum_probs=33.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-----CCCCCCHHH
Q 039177          352 MIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD-----KDVSPGARV  418 (453)
Q Consensus       352 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  418 (453)
                      ++..+...|+.++|...+..+.... +.+...|..++.+|.+.|+..+|++.|+++.+     .|+.|+..+
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            4444445555555555555554432 33444555555555555555555555554432     255555444

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=92.19  E-value=0.00049  Score=63.01  Aligned_cols=208  Identities=11%  Similarity=0.089  Sum_probs=142.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHH
Q 039177          117 FIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQE  196 (453)
Q Consensus       117 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~  196 (453)
                      .+|..|..++.+.|++.+|++.|-+.                        -|...|..++.++.+.|..  +...+.+..
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIkA------------------------~Dps~y~eVi~~A~~~~~~--edLv~yL~M  108 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIKA------------------------DDPSSYMEVVQAANTSGNW--EELVKYLQM  108 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCCC------------------------SCCCSSSHHHHHTTTSSCC--TTHHHHHHT
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHhC------------------------CChHHHHHHHHHHHhCCCH--HHHHHHHHH
Confidence            48889999999999999988776542                        2556677888888888887  667766655


Q ss_pred             HHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----
Q 039177          197 MKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG-----  271 (453)
Q Consensus       197 ~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-----  271 (453)
                      ..+..  -+..+=+.|+-+|++.+++.+-.+++.       .||..-...+..-|...|.++.|.-+|..+....     
T Consensus       109 aRk~~--ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAst  179 (624)
T 3lvg_A          109 ARKKA--RESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLAST  179 (624)
T ss_dssp             TSTTC--CSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSS
T ss_pred             HHHHh--cccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHH
Confidence            44443  334445678888888887665443321       3455555566666777777776666665432110     


Q ss_pred             ---------------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          272 ---------------LVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKE  336 (453)
Q Consensus       272 ---------------~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  336 (453)
                                     --.++.||..+-.+|...+.+..|.-.--.++-.   +|  -...++.-|-..|.+++.+.+++.
T Consensus       180 LV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEa  254 (624)
T 3lvg_A          180 LVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEA  254 (624)
T ss_dssp             SSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHH
T ss_pred             HHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHH
Confidence                           1247889999999999999988876665454432   22  244577888999999999999988


Q ss_pred             HHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          337 MKWKGIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       337 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      -.... ......|+-|.-.|++- ++++..
T Consensus       255 glglE-rAHmGmFTELaILYsKY-~PeKlm  282 (624)
T 3lvg_A          255 ALGLE-RAHMGMFTELAILYSKF-KPQKMR  282 (624)
T ss_dssp             HTTST-TCCHHHHHHHHHHHHSS-CTTHHH
T ss_pred             HhCCC-chhHHHHHHHHHHHHhc-CHHHHH
Confidence            77432 34788999999999985 344333

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.99  E-value=7.7  Score=35.97  Aligned_cols=56  Identities=5%  Similarity=0.070  Sum_probs=24.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC--CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          282 YINGLCKQNNVEAGIKMIACMEEL--GSKPD---VITYNTLLQALCKVRELNRLRELVKEM  337 (453)
Q Consensus       282 li~~~~~~~~~~~a~~~~~~m~~~--~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~~  337 (453)
                      +...|...|++.+|.+++..+...  |....   ...+...++.|...+++..|..++..+
T Consensus       143 La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki  203 (445)
T 4b4t_P          143 LVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKI  203 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            444444555555555555444321  11100   123344444555555555555544443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.82  E-value=1.2  Score=44.21  Aligned_cols=51  Identities=18%  Similarity=0.121  Sum_probs=26.4

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHH
Q 039177          356 LASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQM  407 (453)
Q Consensus       356 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  407 (453)
                      +...|+++.|+++-++....- +.+-.+|..|...|...|+++.|+-.++.+
T Consensus       347 Ll~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            334455555555555554432 223445555555555555555555555554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=91.74  E-value=0.71  Score=32.20  Aligned_cols=63  Identities=13%  Similarity=0.249  Sum_probs=49.4

Q ss_pred             CcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 039177           60 QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIK  124 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  124 (453)
                      +..-+..-+..+-..++.|++....+.+++|.+.+++..|.++++.+...-|-  ...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~--~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--chhhHHHHHH
Confidence            55566777788888899999999999999999999999999999998876432  2345655554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.59  E-value=1.5  Score=32.32  Aligned_cols=67  Identities=15%  Similarity=-0.033  Sum_probs=30.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHCC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          309 PDVITYNTLLQALCKVRELNR---LRELVKEMKWKG-IVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       309 p~~~~~~~li~~~~~~~~~~~---a~~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ++..+--.+..++++..+...   ++.++.++.+.+ ..-.....-.|.-++.+.|++++|.+.++.+.+.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            344444444444444444333   555555554442 1012223333444555555555555555555543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.52  E-value=16  Score=38.64  Aligned_cols=164  Identities=9%  Similarity=0.021  Sum_probs=86.2

Q ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCC---CCcHHHHHHHHHH
Q 039177           83 YHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFR---INRVGFAIEILNC  159 (453)
Q Consensus        83 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~a~~~~~~  159 (453)
                      ...++..+.+.+..+.+.++..+..      .+...--.+..+|..+|++++|...|.+....-   ..... ...-+..
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~------~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~-~~~~~~~  887 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLN------SDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFA-VLREFQE  887 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSC------CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCS-SHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcc------CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhh-hhccccc
Confidence            4457777888888888877665543      344444566788999999999999998754311   00000 0001111


Q ss_pred             HHHCCC--ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcC----hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 039177          160 MINDGF--CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFG----MVDYTNVIRSLVKKEKVFDALGILNQMK  233 (453)
Q Consensus       160 m~~~~~--~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~  233 (453)
                      +.....  ..-..-|..++..+-+.+..  +.+.++-....+..-+-+    ...|..+.+.+...|++++|...+-.+.
T Consensus       888 ~~~~~~~~~~l~~YY~hv~~LFe~~~~~--~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~p  965 (1139)
T 4fhn_B          888 IAEKYHHQNLLSCYYLHLSKKLFEESAY--IDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLS  965 (1139)
T ss_dssp             HHHTTTSCCSSHHHHHHHHHHHHHTSCC--HHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHH
T ss_pred             ccccccccccHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCC
Confidence            111100  01112355566666666665  555555444433321111    1135666666666666666666666655


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          234 SDGIKPDIVCYTMVLNGVIVQEDY  257 (453)
Q Consensus       234 ~~~~~~~~~~~~~ll~~~~~~g~~  257 (453)
                      ....+  ......++..+|..|..
T Consensus       966 d~~~r--~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          966 TTPLK--KSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             HSSSC--HHHHHHHHHHHHHHCCH
T ss_pred             CHHHH--HHHHHHHHHHHHhCCCh
Confidence            44322  23344455444444443

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.13  E-value=1.2  Score=40.55  Aligned_cols=68  Identities=7%  Similarity=0.068  Sum_probs=44.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCChhh
Q 039177          315 NTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN-----KGLCTQSSM  383 (453)
Q Consensus       315 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~~~~~~  383 (453)
                      ..++..+...|+++++...+..+....+- +...|..+|.+|.+.|+..+|++.|+...+     .|+.|...+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P~-~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            34556666677777777666666655433 666777777777777777777777766543     366666654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.62  E-value=9.9  Score=40.17  Aligned_cols=190  Identities=12%  Similarity=0.120  Sum_probs=116.4

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---------------
Q 039177          210 TNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVP---------------  274 (453)
Q Consensus       210 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~---------------  274 (453)
                      ..++..+...+.++.+.++......     +...--.+..+|...|++++|.+.|.+.-. |+..               
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~-----~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~  889 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS-----DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIA  889 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC-----CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC-----CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccc
Confidence            3455666677777777665543322     444445566788899999999999976421 1100               


Q ss_pred             --------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          275 --------DVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDV----ITYNTLLQALCKVRELNRLRELVKEMKWKGI  342 (453)
Q Consensus       275 --------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  342 (453)
                              -..-|..++..+.+.+.++.+.++-...++....-+.    ..|..+.+.+...|++++|...+-.+.....
T Consensus       890 ~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          890 EKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             HTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             ccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence                    1123566777888888888888877766653222222    2578889999999999999999888876644


Q ss_pred             CcCHHHHHHHHHHHHhcCCHHH------------HHHHHHHHHHC--CCCCChhhHHHHHHHHHhCCCHHHHHHH-HHHH
Q 039177          343 VLNLQTYSIMIDGLASKGDIIE------------ACGLLEEALNK--GLCTQSSMFDETICGLCQRGLVRKALEL-LKQM  407 (453)
Q Consensus       343 ~p~~~~~~~li~~~~~~g~~~~------------A~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~m  407 (453)
                      +  ......||...+..|..+.            ..+++....+.  .+...+.-|..|-.-+...|++.+|-.+ |+..
T Consensus       970 r--~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          970 K--KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             C--HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence            3  4456667766666655443            33443322211  1122223355555566677777666554 4443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.18  E-value=2.7  Score=41.65  Aligned_cols=52  Identities=6%  Similarity=-0.045  Sum_probs=27.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          320 ALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       320 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      .|...|+++.|+.+-+.....-+. +-.+|..|..+|...|+++.|+-.++.+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            344455555555555555544222 3445555555555555555555555544

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=88.16  E-value=1.8  Score=32.05  Aligned_cols=62  Identities=13%  Similarity=0.266  Sum_probs=40.0

Q ss_pred             CcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHH
Q 039177           60 QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLI  123 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  123 (453)
                      |..-+..-+..+-.+++.|++......+++|.+.+++..|.++|+.+...-|  +...+|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHH
Confidence            4445555666666677777777777777777777777777777777766532  2233454444

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=87.84  E-value=6.7  Score=29.04  Aligned_cols=73  Identities=11%  Similarity=0.057  Sum_probs=42.4

Q ss_pred             CCcCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          342 IVLNLQTYSIMIDGLASKGDI---IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       342 ~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      -.|+..+--.+..++.+....   .+++.++++..+.+..-.....-.|..++.+.|++++|.++.+.+.  .+.|+-
T Consensus        36 ~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL--~~eP~N  111 (134)
T 3o48_A           36 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF--EHERNN  111 (134)
T ss_dssp             GGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH--TTCTTC
T ss_pred             CCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH--hhCCCC
Confidence            344555555555555555543   3566677666655421223445555667777777777777777777  445553

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.40  E-value=18  Score=33.46  Aligned_cols=240  Identities=9%  Similarity=-0.005  Sum_probs=136.3

Q ss_pred             cChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc-CCCcChhh--HHHHHHHHHhcCChhH--HHHHHHHHHh--CC-CC
Q 039177          167 VDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL-GFCFGMVD--YTNVIRSLVKKEKVFD--ALGILNQMKS--DG-IK  238 (453)
Q Consensus       167 p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~--~~~li~~~~~~g~~~~--a~~~~~~m~~--~~-~~  238 (453)
                      -.......++..|...+++  +...+.+..+.+. |......+  .+.++.........+.  -+.+.+.+..  .| +-
T Consensus        54 s~~r~l~~iv~l~~~~~~~--~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~~d~~~~~~~i~~l~~vte~kif  131 (445)
T 4b4t_P           54 SSKEVLAKIVDLLASRNKW--DDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKSLDLNTRISVIETIRVVTENKIF  131 (445)
T ss_dssp             TCHHHHHHHHHHHHHHSCH--HHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHCCSSSSSCCCC
T ss_pred             hHHHHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHhccchH
Confidence            3455677788888888888  7776666555443 43222222  2223333333333332  2222222211  11 11


Q ss_pred             C---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHH----CC
Q 039177          239 P---DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPD-----VYTYNVYINGLCKQNNVEAGIKMIACMEE----LG  306 (453)
Q Consensus       239 ~---~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~  306 (453)
                      .   .......|...+...|++.+|..++..+...-...+     ...+..-+..|...+++..|..++..+..    ..
T Consensus       132 lE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~  211 (445)
T 4b4t_P          132 VEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNP  211 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccC
Confidence            1   123345678889999999999999999864311121     34567778889999999999999988642    22


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCcCHHHHHHH----HHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 039177          307 SKPD--VITYNTLLQALCKVRELNRLRELVKEMKWK-GIVLNLQTYSIM----IDGLASKGDIIEACGLLEEALNKGLCT  379 (453)
Q Consensus       307 ~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l----i~~~~~~g~~~~A~~~~~~m~~~~~~~  379 (453)
                      ..|+  ...+...+..+...+++.+|.+.|.++... ...-|...+..+    +.+..-.+..+.-..++.........+
T Consensus       212 ~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~  291 (445)
T 4b4t_P          212 KYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLK  291 (445)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCH
T ss_pred             CcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhccccc
Confidence            2222  235677788888899999999888887653 111133222221    111122222222233333333333345


Q ss_pred             ChhhHHHHHHHHHhC--CCHHHHHHHHHHHh
Q 039177          380 QSSMFDETICGLCQR--GLVRKALELLKQMA  408 (453)
Q Consensus       380 ~~~~~~~li~~~~~~--g~~~~A~~~~~~m~  408 (453)
                      +...|..++.+|...  .+++...+.|....
T Consensus       292 ~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L  322 (445)
T 4b4t_P          292 KLESQESLVKLFTTNELMRWPIVQKTYEPVL  322 (445)
T ss_dssp             HHHHHHHHHHHHHHCCSSSHHHHHHHTCSST
T ss_pred             ccHHHHHHHHHHHhchHhhhHHHHHHHHHHh
Confidence            667788888888765  35666666665543

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=87.37  E-value=7.2  Score=28.88  Aligned_cols=46  Identities=13%  Similarity=0.162  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +..+-++.+...++.|++.+....+.+|.+.+++.-|+++|+-.+.
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~  116 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD  116 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444555666666666666666666666666666665554

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=87.17  E-value=5.9  Score=27.66  Aligned_cols=46  Identities=13%  Similarity=0.162  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      +..+-++.+...++.|.+.+..+.+.+|.+.+++.-|+++|+-.+.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~   73 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKD   73 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444445555555555555555555555555555555443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=84.40  E-value=2.3  Score=32.99  Aligned_cols=131  Identities=8%  Similarity=0.034  Sum_probs=71.9

Q ss_pred             cCCCCChh--hHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCC-------HHHHHHHHHHHHhcCChhHHHHHHhhccc
Q 039177           74 YNCEPPPE--AYHFVIKTLAENSQFCDISSVLDHIEKRENFETP-------EFIFIDLIKTYADAHRFQDSVNLFYKIPK  144 (453)
Q Consensus        74 ~~~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~~~~  144 (453)
                      .|..|...  ++-.-++.+...+.++.|+-+.+.+....+..++       ..++..+.+++...|++..|...|++   
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~q---   88 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTM---   88 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH---
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHH---
Confidence            44555443  3445677888899999999888876654222333       23667788899999999999999887   


Q ss_pred             CCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhH
Q 039177          145 FRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFD  224 (453)
Q Consensus       145 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  224 (453)
                              |+++-+.+.+.   ++.  ...+    ......  ..         ......+...-.-+..+|.+.+++++
T Consensus        89 --------ALq~~k~l~k~---~s~--~~~~----~~~ss~--p~---------s~~~~~e~Elkykia~C~~~l~~~~~  140 (167)
T 3ffl_A           89 --------ALQQKKALSKT---SKV--RPST----GNSAST--PQ---------SQCLPSEIEVKYKLAECYTVLKQDKD  140 (167)
T ss_dssp             --------HHHHHHCC----------------------------------------CCCCHHHHHHHHHHHHHHTTCHHH
T ss_pred             --------HHHHHHHHhcC---CCc--cccc----cccCCC--cc---------cccccchHHHHHHHHHHHHHHCCHHH
Confidence                    33333322221   111  1111    000000  00         01122345555557788889999999


Q ss_pred             HHHHHHHHHhC
Q 039177          225 ALGILNQMKSD  235 (453)
Q Consensus       225 a~~~~~~m~~~  235 (453)
                      |+.+++.+..+
T Consensus       141 Ai~~Le~Ip~k  151 (167)
T 3ffl_A          141 AIAILDGIPSR  151 (167)
T ss_dssp             HHHHHHTSCGG
T ss_pred             HHHHHhcCCch
Confidence            99998876543

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.13  E-value=13  Score=27.98  Aligned_cols=65  Identities=12%  Similarity=0.076  Sum_probs=28.5

Q ss_pred             cCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          344 LNLQTYSIMIDGLASKGDI---IEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       344 p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      |+..+--.+..++.+....   .+++.++++....+..-.....-.|..++.+.|++++|.++.+.++
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL  104 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  104 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444444444444444332   2344455544443211122233334445555555555555555555

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.73  E-value=17  Score=33.42  Aligned_cols=98  Identities=11%  Similarity=-0.030  Sum_probs=67.5

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---CCCCCChhh--H
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSD--GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLV---LGLVPDVYT--Y  279 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~---~g~~~~~~~--~  279 (453)
                      .+...+...|.+.|+++.|.+.|.++...  +..--...+-.+++.+...+++..+...+.+...   .+-.++...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            36778889999999999999999998864  3333456777888889999999999988888754   222222211  0


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          280 NVYINGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       280 ~~li~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      ..-...+...+++..|...|-+...
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHhc
Confidence            1111123457888888888877654

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	453
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.85
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.82
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.56
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.55
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.25
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.18
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.18
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.13
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.04
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.94
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.93
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.81
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.59
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.57
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.51
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.48
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.36
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.36
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.35
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.33
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.3
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.21
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.2
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.17
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.06
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.05
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.98
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.98
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.9
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.88
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.84
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.83
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.8
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.77
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.74
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.7
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.65
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.62
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.6
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.5
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.42
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.37
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.37
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.34
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.31
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.04
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.98
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.22
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.22
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.72
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.48
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.33
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.21
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.94
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.92
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.91
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	85.77

>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=99.85  E-value=1.2e-17  Score=153.11  Aligned_cols=336  Identities=12%  Similarity=0.026  Sum_probs=259.5

Q ss_pred             ChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHH--
Q 039177           79 PPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEI--  156 (453)
Q Consensus        79 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~--  156 (453)
                      ++..+..+...+.+.|++++|...++.+.+..  |.+..++..+..+|.+.|++++|+..+.................  
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  109 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccc
Confidence            56778888899999999999999999998874  56778999999999999999999999988766553222222221  


Q ss_pred             --------------HHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCCh
Q 039177          157 --------------LNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKV  222 (453)
Q Consensus       157 --------------~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  222 (453)
                                    ........ .................+..  ..+...+....... +.+...+..+...+...|++
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  185 (388)
T d1w3ba_         110 ALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRL--EEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEI  185 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCH--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCH
T ss_pred             cccccccccccccccccccccc-cccccccccccccccccchh--hhhHHHHHHhhccC-cchhHHHHhhcccccccCcH
Confidence                          11111111 12222333333344444444  56666666655543 34567788889999999999


Q ss_pred             hHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          223 FDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       223 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ++|...+++..+..+. +..+|..+...+...|++++|...++.....+ ..+...+..+...+.+.|++++|...|++.
T Consensus       186 ~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  263 (388)
T d1w3ba_         186 WLAIHHFEKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRA  263 (388)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcc-cHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999998876443 67788999999999999999999999988765 356677888889999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh
Q 039177          303 EELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSS  382 (453)
Q Consensus       303 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  382 (453)
                      .+... -+..++..+...+...|++++|...++........ +...+..+...+...|++++|+..|++..+.. +-+..
T Consensus       264 l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~  340 (388)
T d1w3ba_         264 IELQP-HFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPT-HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAA  340 (388)
T ss_dssp             HHTCS-SCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHH
T ss_pred             HHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCc-cchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            88542 25678999999999999999999999998887544 78889999999999999999999999987753 23456


Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC-HHHHHHHHhchh
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMADKDVSPG-ARVWEALLLSSV  427 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~a~~  427 (453)
                      ++..+...|.+.|++++|...|++..  .+.|+ ...|..+-.++.
T Consensus       341 ~~~~la~~~~~~g~~~~A~~~~~~al--~l~P~~~~a~~~lg~~~~  384 (388)
T d1w3ba_         341 AHSNLASVLQQQGKLQEALMHYKEAI--RISPTFADAYSNMGNTLK  384 (388)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHH--TTCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH--HhCCCCHHHHHHHHHHHH
Confidence            78889999999999999999999988  45776 445555544443

>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=99.82  E-value=2.3e-16  Score=144.32  Aligned_cols=327  Identities=13%  Similarity=0.026  Sum_probs=245.6

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCC
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGF  165 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~  165 (453)
                      +...+.+.|++++|.+.++.+.+..  |.+..++..+...|.+.|++++|+..|++..+.+                   
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-------------------   63 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE--PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-------------------   63 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-------------------
Confidence            3456778899999999999999874  5678899999999999999999999998854422                   


Q ss_pred             ccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCC---------------------------------CcChhhHHHH
Q 039177          166 CVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGF---------------------------------CFGMVDYTNV  212 (453)
Q Consensus       166 ~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~---------------------------------~~~~~~~~~l  212 (453)
                      +-+..++..+..++...|++  ++|...+....+...                                 ..........
T Consensus        64 p~~~~a~~~l~~~~~~~g~~--~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  141 (388)
T d1w3ba_          64 PLLAEAYSNLGNVYKERGQL--QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDL  141 (388)
T ss_dssp             TTCHHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHH
T ss_pred             CCCHHHHHHHHHHhhhhccc--cccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            11233444555555555555  555555544444321                                 1223334444


Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  292 (453)
                      .......+....+...+......... +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~  219 (388)
T d1w3ba_         142 GNLLKALGRLEEAKACYLKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCT
T ss_pred             cccccccchhhhhHHHHHHhhccCcc-hhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccH
Confidence            55555666677777777766655333 66778888889999999999999999988754 34567888899999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          293 EAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEA  372 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  372 (453)
                      ++|...++.....+. .+...+..+...+.+.|++++|...|+...+.... +..++..+...|...|++++|.+.++..
T Consensus       220 ~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~  297 (388)
T d1w3ba_         220 DRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTA  297 (388)
T ss_dssp             THHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            999999999888653 36678888999999999999999999999988655 7789999999999999999999999998


Q ss_pred             HHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCC-HHHHHHHHhchhc--chhhHHHHHHHHHH
Q 039177          373 LNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPG-ARVWEALLLSSVS--KLDFVNTSFIRLVD  442 (453)
Q Consensus       373 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~a~~~--~~~~~~~~~~~~~~  442 (453)
                      .... +.+...+..+...+.+.|++++|+..|++..+  +.|+ ..++..+-..+..  +.+.+...+.+.++
T Consensus       298 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         298 LRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             hccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8764 55677888899999999999999999999884  5666 4445545444543  44445455555443

>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=99.56  E-value=1.3e-12  Score=116.20  Aligned_cols=228  Identities=11%  Similarity=-0.028  Sum_probs=184.1

Q ss_pred             HHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 039177          174 LILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV  253 (453)
Q Consensus       174 ~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  253 (453)
                      .....+.+.|++  ++|...|+.+.+.. +-+..+|..+..+|...|++++|+..|++..+..+. +...|..+..+|..
T Consensus        24 ~~g~~~~~~g~~--~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~   99 (323)
T d1fcha_          24 EEGLRRLQEGDL--PNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHTTCH--HHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCH--HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccc
Confidence            345557788988  99999999998875 446778999999999999999999999999876544 67888889999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCChh----------------hHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHH
Q 039177          254 QEDYVKAEELFDELLVLGLVPDVY----------------TYNVYINGLCKQNNVEAGIKMIACMEELGS-KPDVITYNT  316 (453)
Q Consensus       254 ~g~~~~a~~~~~~m~~~g~~~~~~----------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~  316 (453)
                      .|++++|.+.++......  |+..                .....+..+...+..+++.+.|....+... ..+..++..
T Consensus       100 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~  177 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  177 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence            999999999999987743  2211                111122334455677888888888776432 245678888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      +...+...|++++|...|+........ +...|..+...|...|++++|.+.|++..+.. +-+...+..+..+|.+.|+
T Consensus       178 l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         178 LGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCC
Confidence            999999999999999999999887655 78899999999999999999999999998764 2356678889999999999


Q ss_pred             HHHHHHHHHHHhh
Q 039177          397 VRKALELLKQMAD  409 (453)
Q Consensus       397 ~~~A~~~~~~m~~  409 (453)
                      +++|++.|++.++
T Consensus       256 ~~~A~~~~~~al~  268 (323)
T d1fcha_         256 HREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999875

>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=99.55  E-value=7.1e-12  Score=111.34  Aligned_cols=228  Identities=11%  Similarity=-0.008  Sum_probs=178.9

Q ss_pred             HHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc
Q 039177          122 LIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL  200 (453)
Q Consensus       122 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~  200 (453)
                      ....+.+.|++++|+..|++                  .++.  .| +..+|..+..++...|++  ++|...|.+..+.
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~------------------al~~--~P~~~~a~~~lg~~~~~~~~~--~~A~~~~~~al~~   82 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEA------------------AVQQ--DPKHMEAWQYLGTTQAENEQE--LLAISALRRCLEL   82 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH------------------HHHS--CTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHH------------------HHHh--CCCCHHHHHHHHHHHHHcCCh--HHHHHHHHhhhcc
Confidence            44556777888888777776                  4432  34 466889999999999999  9999999998887


Q ss_pred             CCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCC--------------CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          201 GFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKP--------------DIVCYTMVLNGVIVQEDYVKAEELFDE  266 (453)
Q Consensus       201 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--------------~~~~~~~ll~~~~~~g~~~~a~~~~~~  266 (453)
                      . +-+...|..+...|...|++++|.+.++.........              +.......+..+...+.+.+|...+..
T Consensus        83 ~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_          83 K-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             c-cccccccccccccccccccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            5 4467789999999999999999999999988653210              001111222344455678888888888


Q ss_pred             HHHCCC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcC
Q 039177          267 LLVLGL-VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLN  345 (453)
Q Consensus       267 m~~~g~-~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~  345 (453)
                      ..+... ..+...+..+...+...|++++|...|+....... -+...|..+...|.+.|++++|.+.|+...+.... +
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~  239 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-Y  239 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-C
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccccc-ccccchhhhhhcccccccchhHHHHHHHHHHHhhc-c
Confidence            776432 24566788888899999999999999999887542 25778999999999999999999999999987544 6


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          346 LQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       346 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      ..+|..+..+|.+.|++++|+..|++..+
T Consensus       240 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         240 IRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            78899999999999999999999999876

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=2.7e-09  Score=93.61  Aligned_cols=188  Identities=14%  Similarity=0.081  Sum_probs=145.1

Q ss_pred             CChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 039177          220 EKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMI  299 (453)
Q Consensus       220 g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~  299 (453)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+++.........|...+..+.+.|+.+.|.++|
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            34578888898888765555677788888888899999999999999887543333457888888899999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-C
Q 039177          300 ACMEELGSKPDVITYNTLLQA-LCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG-L  377 (453)
Q Consensus       300 ~~m~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~  377 (453)
                      +...+.+.. +...|...... +...|+.+.|..+|+.+.+.... +...|...++.+.+.|+++.|..+|++..... .
T Consensus       158 ~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            998876533 33344333332 34568899999999999887444 67889999999999999999999999988763 3


Q ss_pred             CCC--hhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          378 CTQ--SSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       378 ~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .|.  ...|...+..-...|+.+.+.++++++.+
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333  34677788777888999999999998765

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.18  E-value=9e-09  Score=90.17  Aligned_cols=186  Identities=11%  Similarity=-0.006  Sum_probs=151.4

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDEL  267 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m  267 (453)
                      +++..+|+.......+.+...|...+..+.+.|+++.|..+|+.+.+.........|...+..+.+.|+.+.|.++|+..
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            67888888888765566677899999999999999999999999988655444567899999999999999999999999


Q ss_pred             HHCCCCCChhhHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCc-
Q 039177          268 LVLGLVPDVYTYNVYIN-GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKG-IVL-  344 (453)
Q Consensus       268 ~~~g~~~~~~~~~~li~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~p-  344 (453)
                      ++.+. .+...|..... -+...|+.+.|..+|+.+.+.. ..+...|...++.+.+.|+++.|..+|+...+.. ..| 
T Consensus       161 l~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~  238 (308)
T d2onda1         161 REDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPE  238 (308)
T ss_dssp             HTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGG
T ss_pred             HHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChH
Confidence            88653 23334433333 3445689999999999999853 3357789999999999999999999999998874 333 


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          345 -NLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       345 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                       ....|...+.--...|+.+.+..+.+++.+.
T Consensus       239 ~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         239 KSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             GCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             3568999999888999999999999988764

>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=99.18  E-value=4.8e-09  Score=92.08  Aligned_cols=216  Identities=8%  Similarity=0.022  Sum_probs=169.0

Q ss_pred             HhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcC-ChhHHHHHHHHHHhCCCCCCHHHHHHHH
Q 039177          170 KTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKE-KVFDALGILNQMKSDGIKPDIVCYTMVL  248 (453)
Q Consensus       170 ~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~ll  248 (453)
                      ..|+.+...+.+.+..  ++|+++++.+++.. +-+...|+....++...| ++++|++.++...+..+. +..+|..+.
T Consensus        44 ~a~~~~~~~~~~~e~~--~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~  119 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERS--ERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHTCCC--HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCch--HHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHh
Confidence            3566666677788888  99999999999976 556677899998988876 589999999999887655 788999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC--
Q 039177          249 NGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE--  326 (453)
Q Consensus       249 ~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--  326 (453)
                      ..+.+.|++++|+..++.+.+.. +.+...|..+...+.+.|++++|.+.++.+++.+.. +...|+.+...+.+.+.  
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccc
Confidence            99999999999999999998864 356889999999999999999999999999986532 56678777766666555  


Q ss_pred             ----HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHh
Q 039177          327 ----LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCT-QSSMFDETICGLCQ  393 (453)
Q Consensus       327 ----~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~  393 (453)
                          +++|...+...++..+. +...|..+...+... ..+++.+.++...+....+ +...+..++..|..
T Consensus       198 ~~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence                57888888888887655 778888776665544 4688888888776653322 33445556666543

>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=99.16  E-value=6.9e-08  Score=85.74  Aligned_cols=275  Identities=9%  Similarity=-0.055  Sum_probs=188.9

Q ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHcCCCCCC---HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHH
Q 039177           84 HFVIKTLAENSQFCDISSVLDHIEKRENFETP---EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCM  160 (453)
Q Consensus        84 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m  160 (453)
                      ......+...|++++|..+++.......-.++   ...+..+...|...|++++|+..|++...           +..  
T Consensus        16 ~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~-----------~~~--   82 (366)
T d1hz4a_          16 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQ-----------MAR--   82 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-----------HHH--
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-----------HHH--
Confidence            34456678899999999999999876311111   34677788899999999999999887332           211  


Q ss_pred             HHCCCcc-ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHc----CCCc---ChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 039177          161 INDGFCV-DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKL----GFCF---GMVDYTNVIRSLVKKEKVFDALGILNQM  232 (453)
Q Consensus       161 ~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~----g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m  232 (453)
                       ..+..+ ....+..+...+...++.  ..+...+......    +...   ....+..+...+...|+++.+...+...
T Consensus        83 -~~~~~~~~~~~~~~~~~~~~~~~~~--~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~  159 (366)
T d1hz4a_          83 -QHDVWHYALWSLIQQSEILFAQGFL--QTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSG  159 (366)
T ss_dssp             -HTTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -hhcchHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHH
Confidence             112111 223556666778888888  8888877765532    2111   1234566778888999999999999888


Q ss_pred             HhC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCC----ChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 039177          233 KSD----GIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG--LVP----DVYTYNVYINGLCKQNNVEAGIKMIACM  302 (453)
Q Consensus       233 ~~~----~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m  302 (453)
                      ...    +......++..+...+...++...+...+.......  ...    ....+......+...|+.+.|...++..
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  239 (366)
T d1hz4a_         160 IEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHT  239 (366)
T ss_dssp             HHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            753    222234556666777888899998888887765421  111    1234555666788899999999998887


Q ss_pred             HHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          303 EELGSKP---DVITYNTLLQALCKVRELNRLRELVKEMKWK----GIVLN-LQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       303 ~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .+.....   ....+..+..++...|++++|...++.....    +..|+ ..++..+...|...|++++|.+.+++..+
T Consensus       240 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         240 AKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             CCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6543222   2345667788899999999999998877642    33333 34677788889999999999999987754

>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=99.13  E-value=5.8e-09  Score=91.55  Aligned_cols=215  Identities=8%  Similarity=-0.018  Sum_probs=169.7

Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHCCCCCChhhHHHHHH
Q 039177          206 MVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQE-DYVKAEELFDELLVLGLVPDVYTYNVYIN  284 (453)
Q Consensus       206 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~g~~~~~~~~~~li~  284 (453)
                      ...++.+...+.+.+.+++|+++++++.+..+. +...|+....++...| ++++|+..++..++.. +-+..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhH
Confidence            345677778888999999999999999997655 7788898888888876 5899999999998865 356888999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC---
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD---  361 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~---  361 (453)
                      .+.+.|++++|++.+..+.+... -+...|..+...+.+.|++++|+..++.+++.++. +...|+.+...+.+.+.   
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~dp-~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHhhccHHHHHHHHhhhhhhhh-cchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            99999999999999999998643 26789999999999999999999999999998766 78888888777776665   


Q ss_pred             ---HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCC-CCCHHHHHHHHhch
Q 039177          362 ---IIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDV-SPGARVWEALLLSS  426 (453)
Q Consensus       362 ---~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~~~~~ll~a~  426 (453)
                         +++|+..+.+..+.. +.+...|..+...+. ....+++.+.++...+... ..+...+..+...+
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence               678999998888765 345666666655544 4446788888888765322 22344555555444

>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=99.04  E-value=1.9e-07  Score=82.77  Aligned_cols=270  Identities=9%  Similarity=-0.021  Sum_probs=192.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC------hHhHHHHHHHHHhcCCCChHHHH
Q 039177          118 IFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD------GKTCSLILSSVCEQRDLSSDELL  191 (453)
Q Consensus       118 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~------~~~~~~ll~~~~~~~~~~~~~a~  191 (453)
                      ........+...|++++|+.+|++..                  ..  .|+      ..++..+...+...|++  ++|.
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL------------------~~--~~~~~~~~~~~a~~~lg~~~~~~g~~--~~A~   71 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLAL------------------EE--LPPGWFYSRIVATSVLGEVLHCKGEL--TRSL   71 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH------------------HT--CCTTCHHHHHHHHHHHHHHHHHHTCH--HHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHH------------------hh--CcCCCcHHHHHHHHHHHHHHHHCCCH--HHHH
Confidence            33444566778888888888887632                  21  122      23567778889999999  9999


Q ss_pred             HHHHHHHHcC----C-CcChhhHHHHHHHHHhcCChhHHHHHHHHHHhC----CCC--C-CHHHHHHHHHHHHhcCCHHH
Q 039177          192 GFVQEMKKLG----F-CFGMVDYTNVIRSLVKKEKVFDALGILNQMKSD----GIK--P-DIVCYTMVLNGVIVQEDYVK  259 (453)
Q Consensus       192 ~~~~~~~~~g----~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~-~~~~~~~ll~~~~~~g~~~~  259 (453)
                      ..+++..+..    . ......+..+...+...|++..+...+......    +..  + ....+..+...+...|+++.
T Consensus        72 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  151 (366)
T d1hz4a_          72 ALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDE  151 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhh
Confidence            9999876542    1 112345677788899999999999998877541    111  1 12355567778889999999


Q ss_pred             HHHHHHHHHHCCC----CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCC----HHHHHHHHHHHHhcCCHHH
Q 039177          260 AEELFDELLVLGL----VPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG--SKPD----VITYNTLLQALCKVRELNR  329 (453)
Q Consensus       260 a~~~~~~m~~~g~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~li~~~~~~~~~~~  329 (453)
                      +...+........    ......+......+...++...+...+.......  ....    ...+..+...+...|++++
T Consensus       152 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  231 (366)
T d1hz4a_         152 AEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAA  231 (366)
T ss_dssp             HHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHH
Confidence            9999998876322    2233455566677888999999988887765421  1111    2346667778889999999


Q ss_pred             HHHHHHHHHHCCCC---cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-hhhHHHHHHHHHhCCCHHHHH
Q 039177          330 LRELVKEMKWKGIV---LNLQTYSIMIDGLASKGDIIEACGLLEEALNK----GLCTQ-SSMFDETICGLCQRGLVRKAL  401 (453)
Q Consensus       330 a~~~~~~~~~~~~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~A~  401 (453)
                      |...+....+....   .....+..+...|...|++++|...++.....    +..|+ ...+..+...|.+.|++++|.
T Consensus       232 a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  311 (366)
T d1hz4a_         232 AANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQ  311 (366)
T ss_dssp             HHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHH
Confidence            99999887765332   23456677888999999999999999987642    43443 345777788999999999999


Q ss_pred             HHHHHHhh
Q 039177          402 ELLKQMAD  409 (453)
Q Consensus       402 ~~~~~m~~  409 (453)
                      +.+++..+
T Consensus       312 ~~l~~Al~  319 (366)
T d1hz4a_         312 RVLLDALK  319 (366)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998754

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.02  E-value=1.3e-08  Score=86.58  Aligned_cols=200  Identities=11%  Similarity=-0.130  Sum_probs=121.1

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 039177          207 VDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGL  286 (453)
Q Consensus       207 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~  286 (453)
                      .+|..+...|.+.|++++|++.|++..+..+. +..+|..+..++.+.|++++|+..|++.++.. +.+..++..+..+|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            45667777888888888888888888776544 67778888888888888888888888887754 23455677777778


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCC----H
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGD----I  362 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~----~  362 (453)
                      ...|++++|...|+...+... .+......+...+.+.+..+.+..+..........+.  .++ ++..+.....    .
T Consensus       116 ~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQW--GWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCST--HHH-HHHHHTTSSCHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhh--hhh-HHHHHHHHHHHHHHH
Confidence            888888888888888776532 2344444444455555555555555555554432221  111 2222221111    1


Q ss_pred             HHHHHHHHHHHHCCCCC-ChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCH
Q 039177          363 IEACGLLEEALNKGLCT-QSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGA  416 (453)
Q Consensus       363 ~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  416 (453)
                      +.+...+......  .| ...+|..+...|...|++++|.+.|++...  ..|+.
T Consensus       192 ~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~  242 (259)
T d1xnfa_         192 ERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--NNVHN  242 (259)
T ss_dssp             HHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCCTT
T ss_pred             HHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--cCCCC
Confidence            2222211111111  11 123456677788888888888888888774  45653

>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=98.94  E-value=8.2e-09  Score=91.58  Aligned_cols=281  Identities=5%  Similarity=-0.102  Sum_probs=180.3

Q ss_pred             HHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHH---hcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHH
Q 039177           86 VIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYA---DAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMIN  162 (453)
Q Consensus        86 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~  162 (453)
                      ++.........++|+++++.+.+..  |.+...|+..-..+.   ..+.......           .+++|+..++....
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~~~l~~l~~~~~~~~~~~-----------~~~~al~~~~~~l~  101 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAA-----------LVKAELGFLESCLR  101 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHH-----------HHHHHHHHHHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhhhcchHHHHH-----------HHHHHHHHHHHHHH
Confidence            3333333344589999999999874  455566655444433   3333222221           23335555555655


Q ss_pred             CCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHH-HHHHHHHhcCChhHHHHHHHHHHhCCCCCCH
Q 039177          163 DGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYT-NVIRSLVKKEKVFDALGILNQMKSDGIKPDI  241 (453)
Q Consensus       163 ~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  241 (453)
                      .. +-+...|..+..++...+..+.+++...+..+.... +.+...+. .....+...+.+++|+..++.+.+..+. +.
T Consensus       102 ~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~  178 (334)
T d1dcea1         102 VN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NY  178 (334)
T ss_dssp             HC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CH
T ss_pred             hC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CH
Confidence            32 235566777777777777755588888888888765 34455554 4446777789999999999999887665 78


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      ..|..+..++.+.|++++|...+....+..  |+   ...+...+...+..+++...+........ ++...+..+...+
T Consensus       179 ~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~  252 (334)
T d1dcea1         179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKS  252 (334)
T ss_dssp             HHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHH
Confidence            889889899999998887765554433311  11   11223334555666677777777666432 2344556666777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCh-hhHHHHHHHH
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQS-SMFDETICGL  391 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-~~~~~li~~~  391 (453)
                      ...++.++|...+.+..+..+. +...+..+..+|...|+.++|.+.+++..+.+  |+. ..|..|...+
T Consensus       253 ~~~~~~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~y~~~L~~~~  320 (334)
T d1dcea1         253 TVLQSELESCKELQELEPENKW-CLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAAYLDDLRSKF  320 (334)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHH-HHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHhhCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHHHHHHHHHHH
Confidence            7778888888888877776443 55677778888888888888888888887753  443 3444444433

>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=6.2e-08  Score=82.19  Aligned_cols=217  Identities=8%  Similarity=-0.125  Sum_probs=147.5

Q ss_pred             HHHHHHHHHHHHHCCC-cc--ChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHH
Q 039177          150 VGFAIEILNCMINDGF-CV--DGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDAL  226 (453)
Q Consensus       150 ~~~a~~~~~~m~~~~~-~p--~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  226 (453)
                      .+.++..+++...... .+  ...+|..+..+|.+.|+.  ++|...|+...+.. +-+..+|+.+..+|.+.|++++|+
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~--~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLR--ALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCH--HHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            3444455555554321 11  234677778889999999  99999999999875 556788999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          227 GILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELG  306 (453)
Q Consensus       227 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  306 (453)
                      +.|++..+..+. +..++..+..++...|++++|...|+...+.. +.+......+...+.+.+..+....+........
T Consensus        92 ~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          92 EAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            999999987544 66788889999999999999999999998864 2344444444455566666666666666666533


Q ss_pred             CCCCHHHHHHHHHHHHhcCC----HHHHHHHHHHHHHCCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          307 SKPDVITYNTLLQALCKVRE----LNRLRELVKEMKWKGIVL-NLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       307 ~~p~~~~~~~li~~~~~~~~----~~~a~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      .  +...++ ++..+.....    .+.+...+......  .| ...+|..+...|...|++++|...|++....+
T Consensus       170 ~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         170 K--EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             C--CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             h--hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            2  222222 2222222222    22222222211111  11 23467778899999999999999999998754

>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=98.81  E-value=8.1e-09  Score=91.65  Aligned_cols=225  Identities=10%  Similarity=0.011  Sum_probs=165.4

Q ss_pred             HHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCC--hhHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHH
Q 039177          188 DELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEK--VFDALGILNQMKSDGIKPDIVCYT-MVLNGVIVQEDYVKAEELF  264 (453)
Q Consensus       188 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~-~ll~~~~~~g~~~~a~~~~  264 (453)
                      ++++.+++...+.. +-+...|..+..++...++  +++|+..+.++.+.... +...+. .....+...+.+++|+..+
T Consensus        90 ~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~  167 (334)
T d1dcea1          90 KAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFT  167 (334)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHH
Confidence            67888888888765 4567778888888777664  78999999999886544 555554 4446777789999999999


Q ss_pred             HHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc
Q 039177          265 DELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVL  344 (453)
Q Consensus       265 ~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p  344 (453)
                      +...+.. +-+...|+.+...+.+.|++++|...+....+.  .|+   ...+...+...+..+++...+......... 
T Consensus       168 ~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~-  240 (334)
T d1dcea1         168 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAE-  240 (334)
T ss_dssp             HTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCC-
T ss_pred             HHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcc-
Confidence            9888765 356788888999999999988776655544431  111   122334456667778888888888776543 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHh
Q 039177          345 NLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLL  424 (453)
Q Consensus       345 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~  424 (453)
                      +...+..+...+...|+.++|...+.+....+ +.+...+..+...|.+.|++++|++.+++..+  +.|+...|..-+.
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~~~L~  317 (334)
T d1dcea1         241 PLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDLR  317 (334)
T ss_dssp             CSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHHHHHH
Confidence            45566677778888899999999999886654 23456677788899999999999999999984  5786555544333

>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=98.59  E-value=1.8e-06  Score=69.10  Aligned_cols=119  Identities=9%  Similarity=-0.043  Sum_probs=59.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHH
Q 039177          286 LCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEA  365 (453)
Q Consensus       286 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  365 (453)
                      +...|+++.|++.|..+.    .|+..+|..+..+|...|++++|+..|+..++.+.. +...|..+..+|.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHHHH
Confidence            344555555555554431    244445555555555555555555555555554433 445555555555555555555


Q ss_pred             HHHHHHHHHCCC------------C--CC-hhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          366 CGLLEEALNKGL------------C--TQ-SSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       366 ~~~~~~m~~~~~------------~--~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      ...|++......            .  .+ ..++..+..++.+.|++++|.+.+....+
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            555555443210            0  00 12233444556666666666666666553

>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=98.57  E-value=2.1e-06  Score=73.84  Aligned_cols=200  Identities=9%  Similarity=-0.029  Sum_probs=129.6

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCChhh
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSD----GIKP-DIVCYTMVLNGVIVQEDYVKAEELFDELLVL----GL-VPDVYT  278 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~-~~~~~~  278 (453)
                      |......|...|++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++|.+.++...+.    |. .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            344456777888888888888877642    1111 2357777888888888888888888876542    11 011334


Q ss_pred             HHHHHHHHH-hcCCHHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCc-----CH-
Q 039177          279 YNVYINGLC-KQNNVEAGIKMIACMEEL----GSKPD-VITYNTLLQALCKVRELNRLRELVKEMKWKGIVL-----NL-  346 (453)
Q Consensus       279 ~~~li~~~~-~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p-----~~-  346 (453)
                      +..+...|. ..|++++|.+.++...+.    +..+. ..++..+...|.+.|++++|...|+.+.......     .. 
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            555555564 468999999998876542    21111 2467888899999999999999999988763221     11 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC---hhhHHHHHHHHHh--CCCHHHHHHHHHHHh
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLC-TQ---SSMFDETICGLCQ--RGLVRKALELLKQMA  408 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~---~~~~~~li~~~~~--~g~~~~A~~~~~~m~  408 (453)
                      ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+..|+++.
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            23345556677889999999999988665321 11   2244556666655  245788888877654

>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=4.6e-06  Score=71.66  Aligned_cols=135  Identities=11%  Similarity=0.088  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccC-hHhHHHHHHHHHhcCCCChHHHHHHHHHH
Q 039177          119 FIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVD-GKTCSLILSSVCEQRDLSSDELLGFVQEM  197 (453)
Q Consensus       119 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~a~~~~~~~  197 (453)
                      |......|..+|++++|.+.|.+           |.++...   .+-.++ ..+|..+..+|.+.|+.  ++|.+.++..
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~k-----------A~~~~~~---~~~~~~~a~~~~~~g~~y~~~~~~--~~A~~~~~~a  103 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLK-----------AADYQKK---AGNEDEAGNTYVEAYKCFKSGGNS--VNAVDSLENA  103 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHH-----------HHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHH-----------HHHHHHH---cCCCHHHHHHHHHHHHHHHHhCCc--HHHHHHHHHh
Confidence            44445566667777777776655           3333222   111111 23556666666666666  6666666554


Q ss_pred             HHc----CC-CcChhhHHHHHHHHHh-cCChhHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 039177          198 KKL----GF-CFGMVDYTNVIRSLVK-KEKVFDALGILNQMKSD----GIKP-DIVCYTMVLNGVIVQEDYVKAEELFDE  266 (453)
Q Consensus       198 ~~~----g~-~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~g~~~~a~~~~~~  266 (453)
                      .+.    |. .....++..+...|.. .|++++|++.+++..+.    +..+ -..++..+...+...|++++|...|++
T Consensus       104 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~  183 (290)
T d1qqea_         104 IQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSK  183 (290)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             hHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHH
Confidence            432    10 0112234444444432 35566666555554321    1110 122344445555555555555555555


Q ss_pred             HHH
Q 039177          267 LLV  269 (453)
Q Consensus       267 m~~  269 (453)
                      ...
T Consensus       184 ~~~  186 (290)
T d1qqea_         184 LIK  186 (290)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=98.50  E-value=2.1e-06  Score=62.51  Aligned_cols=97  Identities=12%  Similarity=-0.043  Sum_probs=55.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCH
Q 039177          318 LQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLV  397 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  397 (453)
                      ...+.+.|++++|+..|...++..+. +...|..+..+|.+.|++++|+..+++..+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPH-NHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCc-chhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            34455556666666666666555444 55556666666666666666666666665544 33445555556666666666


Q ss_pred             HHHHHHHHHHhhCCCCCCHHH
Q 039177          398 RKALELLKQMADKDVSPGARV  418 (453)
Q Consensus       398 ~~A~~~~~~m~~~~~~p~~~~  418 (453)
                      ++|+..|++..  .+.|+...
T Consensus        88 ~~A~~~~~~a~--~~~p~~~~  106 (117)
T d1elwa_          88 EEAKRTYEEGL--KHEANNPQ  106 (117)
T ss_dssp             HHHHHHHHHHH--TTCTTCHH
T ss_pred             HHHHHHHHHHH--HhCCCCHH
Confidence            66666666655  23444333

>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=98.48  E-value=7.7e-06  Score=65.34  Aligned_cols=124  Identities=11%  Similarity=-0.055  Sum_probs=72.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCH
Q 039177          213 IRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNV  292 (453)
Q Consensus       213 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~  292 (453)
                      ...+...|+++.|++.|+++.    .|+..+|..+..+|...|++++|++.|++.++.. +.+...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            445566677777777766542    3455666667777777777777777777766644 23455666666667777777


Q ss_pred             HHHHHHHHHHHHCCC--------------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          293 EAGIKMIACMEELGS--------------KPD-VITYNTLLQALCKVRELNRLRELVKEMKWKG  341 (453)
Q Consensus       293 ~~a~~~~~~m~~~~~--------------~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  341 (453)
                      ++|...|+.......              ..+ ..++..+..+|.+.|++++|.+.+....+..
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            777766666554210              000 1233444455555555666555555555443

>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=98.40  E-value=7.1e-06  Score=59.56  Aligned_cols=91  Identities=16%  Similarity=0.030  Sum_probs=61.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      ...+.+.|++++|+..|...++... -+...|..+..+|.+.|++++|+..+....+.+.. +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCC-cchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCH
Confidence            3456666777777777777666432 24556777777777777777777777777766554 666677777777777777


Q ss_pred             HHHHHHHHHHHHC
Q 039177          363 IEACGLLEEALNK  375 (453)
Q Consensus       363 ~~A~~~~~~m~~~  375 (453)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777777654

>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=98.36  E-value=1.1e-05  Score=62.28  Aligned_cols=91  Identities=15%  Similarity=0.053  Sum_probs=54.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      .+.|.+.|++++|...|+...+... -+...|..+..+|...|++++|...|+..++.... +..+|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCCH
Confidence            3345566666666666666665432 24455666666666666666666666666665444 555666666666666666


Q ss_pred             HHHHHHHHHHHHC
Q 039177          363 IEACGLLEEALNK  375 (453)
Q Consensus       363 ~~A~~~~~~m~~~  375 (453)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.36  E-value=4.3e-06  Score=67.36  Aligned_cols=100  Identities=9%  Similarity=-0.066  Sum_probs=87.2

Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHH
Q 039177          274 PDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMI  353 (453)
Q Consensus       274 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li  353 (453)
                      |+...+......|.+.|++++|+..|...++... -+...|..+..+|.+.|++++|+..|...++..+. +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p-~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            6667777788899999999999999999888642 36778999999999999999999999999887555 788899999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHC
Q 039177          354 DGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       354 ~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .+|.+.|++++|...|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988764

>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=98.35  E-value=0.00042  Score=59.68  Aligned_cols=271  Identities=9%  Similarity=0.004  Sum_probs=151.0

Q ss_pred             CCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHH
Q 039177           77 EPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEI  156 (453)
Q Consensus        77 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~  156 (453)
                      .||..-...+...|.+.|.++.|..+|..+.          -|..++..|.+.++++.|.+++.+.              
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~----------d~~rl~~~~v~l~~~~~avd~~~k~--------------   66 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA--------------   66 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT----------CHHHHHHHHHTTTCHHHHHHHHHHH--------------
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC----------CHHHHHHHHHhhccHHHHHHHHHHc--------------
Confidence            3455455567778888999999999887653          3566778888888888888776541              


Q ss_pred             HHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCC
Q 039177          157 LNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDG  236 (453)
Q Consensus       157 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  236 (453)
                                -+..+|..+..+|.+....  ..+     .+.......+......++..|-..|.+++...+++..... 
T Consensus        67 ----------~~~~~~k~~~~~l~~~~e~--~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-  128 (336)
T d1b89a_          67 ----------NSTRTWKEVCFACVDGKEF--RLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-  128 (336)
T ss_dssp             ----------TCHHHHHHHHHHHHHTTCH--HHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-
T ss_pred             ----------CCHHHHHHHHHHHHhCcHH--HHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-
Confidence                      2566788888888877654  221     2333334455666678999999999999999999987643 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCC--------ChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 039177          237 IKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLG-LVP--------DVYTYNVYINGLCKQNNVEAGIKMIACMEELGS  307 (453)
Q Consensus       237 ~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~~--------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  307 (453)
                      -..+...++-++..|++.+ .++..+.+...  .+ ..+        ....|.-++..|.+.|+++.|..+.   .+.  
T Consensus       129 ~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~--s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--  200 (336)
T d1b89a_         129 ERAHMGMFTELAILYSKFK-PQKMREHLELF--WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--  200 (336)
T ss_dssp             TTCCHHHHHHHHHHHHTTC-HHHHHHHHHHH--STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--
T ss_pred             CccchHHHHHHHHHHHHhC-hHHHHHHHHhc--cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--
Confidence            2447778888999998865 33333333322  11 000        1122344444455555555443322   111  


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHH-------------HHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          308 KPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYS-------------IMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       308 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~-------------~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                      .++..-....+..+.+..+.+...++.....+.  .|  ...+             .++..+-+.+++......++....
T Consensus       201 ~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~  276 (336)
T d1b89a_         201 PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQN  276 (336)
T ss_dssp             TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHT
T ss_pred             chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            122223344555566666666555555544442  11  1222             344445555666666666655554


Q ss_pred             CCCCCChhhHHHHHHHHHhCCCHHHHHHHH
Q 039177          375 KGLCTQSSMFDETICGLCQRGLVRKALELL  404 (453)
Q Consensus       375 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  404 (453)
                      .|   +..+.+++...|...++++.-.+.+
T Consensus       277 ~n---~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         277 HN---NKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             TC---CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cC---hHHHHHHHHHHHhCcchhHHHHHHH
Confidence            44   3467788888888888865544444

>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=98.33  E-value=1.7e-05  Score=61.14  Aligned_cols=92  Identities=10%  Similarity=0.036  Sum_probs=52.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 039177          248 LNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVREL  327 (453)
Q Consensus       248 l~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  327 (453)
                      ...|.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|.+.|+..++... -+...|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p-~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcc-cchHHHHHHHHHHHHcCCH
Confidence            344555666666666666655543 23455555555566666666666666666655331 1334566666666666666


Q ss_pred             HHHHHHHHHHHHCC
Q 039177          328 NRLRELVKEMKWKG  341 (453)
Q Consensus       328 ~~a~~~~~~~~~~~  341 (453)
                      ++|...++...+..
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            66666666665553

>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=98.30  E-value=7.7e-06  Score=65.79  Aligned_cols=99  Identities=13%  Similarity=-0.004  Sum_probs=87.9

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 039177          239 PDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKP-DVITYNTL  317 (453)
Q Consensus       239 ~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l  317 (453)
                      |+...+......+.+.|++++|+..|.+.++.. +.+...|..+..+|.+.|++++|...|+...+.  .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            677778888999999999999999999988865 457788999999999999999999999999885  45 46789999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 039177          318 LQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       318 i~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      ..+|.+.|++++|...|+...+.
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999988764

>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=98.21  E-value=7.2e-06  Score=58.99  Aligned_cols=87  Identities=6%  Similarity=-0.048  Sum_probs=44.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH
Q 039177          283 INGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI  362 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  362 (453)
                      ...+.+.|++++|...|+...+.... +...|..+..++.+.|++++|+..|+...+..+. +...|..+...|...|++
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCH
Confidence            33445555555555555555543211 3445555555555555555555555555554333 445555555555555555


Q ss_pred             HHHHHHHHH
Q 039177          363 IEACGLLEE  371 (453)
Q Consensus       363 ~~A~~~~~~  371 (453)
                      ++|.+.|++
T Consensus       101 ~~A~~~l~~  109 (112)
T d1hxia_         101 NAALASLRA  109 (112)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555554

>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=98.20  E-value=3.3e-06  Score=61.73  Aligned_cols=91  Identities=22%  Similarity=0.136  Sum_probs=41.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCh-hhHHHHHHHHH
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDI---IEACGLLEEALNKGLCTQS-SMFDETICGLC  392 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~~~~~~~-~~~~~li~~~~  392 (453)
                      +++.+...+++++|.+.|+..+..+.. +..++..+..++.+.++.   ++|+.+++++...+..|+. .++..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            444444445555555555555544333 444444444444443322   2355555554443322221 13344444555


Q ss_pred             hCCCHHHHHHHHHHHh
Q 039177          393 QRGLVRKALELLKQMA  408 (453)
Q Consensus       393 ~~g~~~~A~~~~~~m~  408 (453)
                      +.|++++|++.|++..
T Consensus        84 ~~g~~~~A~~~~~~aL   99 (122)
T d1nzna_          84 RLKEYEKALKYVRGLL   99 (122)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHH
Confidence            5555555555555554

>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=98.17  E-value=1.2e-05  Score=57.68  Aligned_cols=89  Identities=11%  Similarity=-0.088  Sum_probs=57.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCC
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGL  396 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  396 (453)
                      +...+.+.|++++|...|+..++..+. +...|..+..+|.+.|++++|+..|++..+.+ +.+...+..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            344556667777777777776666544 56666667777777777777777777666654 3345556666666777777


Q ss_pred             HHHHHHHHHHH
Q 039177          397 VRKALELLKQM  407 (453)
Q Consensus       397 ~~~A~~~~~~m  407 (453)
                      +++|++.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            77777766654

>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=98.06  E-value=0.0022  Score=53.34  Aligned_cols=226  Identities=8%  Similarity=-0.071  Sum_probs=154.3

Q ss_pred             hHhHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHH
Q 039177          169 GKTCSLILSSVCEQRDLSSDELLGFVQEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVCY  244 (453)
Q Consensus       169 ~~~~~~ll~~~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~  244 (453)
                      +..+..|...+-+.++.  ++|.+.|+...+.|   +...+..|...|..    ..++..|...+......+   +....
T Consensus         2 p~~~~~lG~~~~~~~d~--~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~   73 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDF--TQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   73 (265)
T ss_dssp             HHHHHHHHHHHHHTTCH--HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHHHHCCCH--HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchh
Confidence            44555666667777887  89999999888876   55666677777776    567888888888887765   33444


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 039177          245 TMVLNGVIV----QEDYVKAEELFDELLVLGLVPDVYTYNVYINGLC----KQNNVEAGIKMIACMEELGSKPDVITYNT  316 (453)
Q Consensus       245 ~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  316 (453)
                      ..+...+..    ..+.+.|...++...+.|.   ......+...+.    .......+...+......   .+...+..
T Consensus        74 ~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  147 (265)
T d1ouva_          74 HLLGNLYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTI  147 (265)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHH
T ss_pred             hccccccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhh
Confidence            444444443    4677888888888877663   222222333333    244567777777776663   46667777


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          317 LLQALCK----VRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKGLCTQSSMFDETI  388 (453)
Q Consensus       317 li~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  388 (453)
                      |...|..    ..+...+...++...+.|   +......+...|..    ..+.++|...|++..+.|   +...+..|.
T Consensus       148 L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG  221 (265)
T d1ouva_         148 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLG  221 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHH
Confidence            7777775    456777888888877765   55666666666665    568999999999998877   344555566


Q ss_pred             HHHHh----CCCHHHHHHHHHHHhhCCCCC
Q 039177          389 CGLCQ----RGLVRKALELLKQMADKDVSP  414 (453)
Q Consensus       389 ~~~~~----~g~~~~A~~~~~~m~~~~~~p  414 (453)
                      ..|.+    ..+.++|.++|++..+.|-.+
T Consensus       222 ~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         222 AMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            66654    337888999999988776543

>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=98.05  E-value=6.2e-05  Score=58.52  Aligned_cols=73  Identities=8%  Similarity=-0.066  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          348 TYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       348 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      +|+.+..+|.+.|++++|+..++..++.+ +.+...|..+..+|...|++++|+..|++..+  +.|+.......+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~--l~P~n~~~~~~l  136 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQ--LYPNNKAAKTQL  136 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            55666777777777788777777777664 33566677777777777888888887777764  345433333333

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=2.4e-05  Score=56.98  Aligned_cols=40  Identities=15%  Similarity=0.074  Sum_probs=16.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 039177          212 VIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVI  252 (453)
Q Consensus       212 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  252 (453)
                      +++.+...+++++|.+.|+.....++. +..++..+..++.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~-~~~~~~n~a~~L~   44 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSV-SKSTQFEYAWCLV   44 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHT
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHH
Confidence            333444444444444444444443222 3333333444443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.98  E-value=0.00019  Score=55.64  Aligned_cols=63  Identities=13%  Similarity=-0.068  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      +|+.+..+|.+.|++++|+..++..++..+. +...|..+..+|...|++++|...|++..+.+
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            5667778888899999999999888887655 78888888888999999999999999888754

>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=97.90  E-value=7.3e-05  Score=54.93  Aligned_cols=91  Identities=13%  Similarity=0.084  Sum_probs=43.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC---hhhHHHHHHH
Q 039177          317 LLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGL---CTQ---SSMFDETICG  390 (453)
Q Consensus       317 li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~~---~~~~~~li~~  390 (453)
                      +...|.+.|++++|+..|...++.++. +...+..+..+|.+.|++++|++.++++++.+.   ...   ..+|..+...
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~   88 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNS   88 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHH
Confidence            344455555555555555555554333 445555555555555555555555555443210   000   1133344444


Q ss_pred             HHhCCCHHHHHHHHHHHh
Q 039177          391 LCQRGLVRKALELLKQMA  408 (453)
Q Consensus       391 ~~~~g~~~~A~~~~~~m~  408 (453)
                      +...+++++|++.|++..
T Consensus        89 ~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          89 YFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHhCCHHHHHHHHHHHH
Confidence            555555555555555544

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.88  E-value=0.00036  Score=53.88  Aligned_cols=99  Identities=7%  Similarity=0.030  Sum_probs=68.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHHhch
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALLLSS  426 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~a~  426 (453)
                      .+|+.+..+|.+.|++++|+..++...+.+ +.+...|..+..+|...|++++|...|++..+  +.|+.......+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~--l~P~n~~~~~~l~~~  141 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE--VNPQNKAARLQIFMC  141 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHH
Confidence            356667778888899999999888888765 45666788888888899999999999988884  466655555444444


Q ss_pred             hcch----hhHHHHHHHHHHhhhcCC
Q 039177          427 VSKL----DFVNTSFIRLVDQILNTP  448 (453)
Q Consensus       427 ~~~~----~~~~~~~~~~~~~~~~~p  448 (453)
                      ....    ......+.+|+++....+
T Consensus       142 ~~~~~~~~e~~kk~~~~~f~~~~~~d  167 (168)
T d1kt1a1         142 QKKAKEHNERDRRTYANMFKKFAEQD  167 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhHHHHHHHHHHHHHhhhhhcC
Confidence            2222    223344667777665543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.84  E-value=0.00024  Score=53.88  Aligned_cols=74  Identities=12%  Similarity=0.008  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHHHHHHHH
Q 039177          347 QTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDVSPGARVWEALL  423 (453)
Q Consensus       347 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  423 (453)
                      .+|..+..+|.+.|++++|+..++...+.+ +.+...|..+..++...|++++|+..|++..+  +.|+.......+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~~~~~~l  141 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNLDIRNSY  141 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            355666777777777777777777776654 34556677777777777777777777777663  355544433333

>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=97.83  E-value=0.00017  Score=52.85  Aligned_cols=95  Identities=17%  Similarity=0.126  Sum_probs=58.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC-----hhhHHHH
Q 039177          209 YTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLV-PD-----VYTYNVY  282 (453)
Q Consensus       209 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-~~-----~~~~~~l  282 (453)
                      +..+...|.+.|++++|++.|++..+.++. +...|..+..+|.+.|++++|+..++.+++.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            344556677777777777777777766443 6667777777777777777777777776542100 00     1244445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHH
Q 039177          283 INGLCKQNNVEAGIKMIACMEE  304 (453)
Q Consensus       283 i~~~~~~~~~~~a~~~~~~m~~  304 (453)
                      ...+...+++++|.+.|.....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHh
Confidence            5556666667777776666554

>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=97.80  E-value=0.00029  Score=54.90  Aligned_cols=120  Identities=9%  Similarity=0.095  Sum_probs=80.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHH
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDII  363 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  363 (453)
                      ......|++++|.+.|......-  +...        +......+-+...-..+...    ....+..+...+.+.|+++
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVED----KVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCCch
Confidence            45677888888888888877631  1110        00000001111111112221    3356778888899999999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh-----CCCCCCHHH
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD-----KDVSPGARV  418 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  418 (453)
                      +|+..++.+.+.. .-+...|..++.+|.+.|+.++|++.|+++.+     .|+.|+..+
T Consensus        85 ~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          85 AVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999998875 45777899999999999999999999998743     589998765

>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=97.77  E-value=0.0071  Score=50.04  Aligned_cols=224  Identities=10%  Similarity=-0.037  Sum_probs=151.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHh----cCCCChHHHH
Q 039177          116 EFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCE----QRDLSSDELL  191 (453)
Q Consensus       116 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~~~a~  191 (453)
                      +..+..|...+...+++++|++.|++                  ..+.|   |...+..|...|..    ..+.  ..+.
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~k------------------Aa~~g---~~~A~~~Lg~~y~~G~~~~~d~--~~a~   58 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEK------------------ACDLK---ENSGCFNLGVLYYQGQGVEKNL--KKAA   58 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH------------------HHHTT---CHHHHHHHHHHHHHTSSSCCCH--HHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHH------------------HHHCC---CHHHHHHHHHHHHcCCCcchhH--HHHH
Confidence            44566677777778888888888776                  33333   34444445555544    2333  7788


Q ss_pred             HHHHHHHHcCCCcChhhHHHHHHHHHh----cCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHH
Q 039177          192 GFVQEMKKLGFCFGMVDYTNVIRSLVK----KEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIV----QEDYVKAEEL  263 (453)
Q Consensus       192 ~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~a~~~  263 (453)
                      ..+....+.+   +......+...+..    ..+.+.|...++...+.|..   .....+...+..    ......+...
T Consensus        59 ~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~  132 (265)
T d1ouva_          59 SFYAKACDLN---YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEY  132 (265)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             Hhhccccccc---ccchhhccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHH
Confidence            7777777765   33444555555443    46778899999988887643   223333333332    3456777777


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHH
Q 039177          264 FDELLVLGLVPDVYTYNVYINGLCK----QNNVEAGIKMIACMEELGSKPDVITYNTLLQALCK----VRELNRLRELVK  335 (453)
Q Consensus       264 ~~~m~~~g~~~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~  335 (453)
                      +......   .+...+..+...|..    ..+...+...++...+.|   +...+..+...|..    ..++++|...|.
T Consensus       133 ~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~  206 (265)
T d1ouva_         133 FTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYS  206 (265)
T ss_dssp             HHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHH
T ss_pred             hhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHh
Confidence            7777663   456777777777775    457788888888888754   56666666666665    568999999999


Q ss_pred             HHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCC
Q 039177          336 EMKWKGIVLNLQTYSIMIDGLAS----KGDIIEACGLLEEALNKGL  377 (453)
Q Consensus       336 ~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~  377 (453)
                      ...+.|   +...+..|..+|.+    ..+.++|.+.|++..+.|.
T Consensus       207 ~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         207 KACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            999886   56677778888875    3478889999999888773

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.74  E-value=0.0011  Score=50.12  Aligned_cols=114  Identities=11%  Similarity=-0.032  Sum_probs=76.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 039177          242 VCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQAL  321 (453)
Q Consensus       242 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  321 (453)
                      ..+..-...+.+.|++.+|+..|.+.+..-  +....+           . +..  .......    ....+|+.+..+|
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~~~-----------~-~~~--~~~~~~~----~~~~~~~Nla~~~   77 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEEW-----------D-DQI--LLDKKKN----IEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTTC-----------C-CHH--HHHHHHH----HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchhhh-----------h-hHH--HHHhhhh----HHHHHHhhHHHHH
Confidence            344555566777777777777777766521  100000           0 000  0000000    1224677788889


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          322 CKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       322 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      .+.|++++|+..+...++.++. +..+|..+..+|...|++++|...|++..+.+
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999998887655 78899999999999999999999999988764

>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=97.70  E-value=0.00048  Score=53.61  Aligned_cols=122  Identities=7%  Similarity=0.010  Sum_probs=87.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 039177          247 VLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRE  326 (453)
Q Consensus       247 ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  326 (453)
                      ........|++++|.+.|...+...  +....        ......+.+...-..+..    -....+..+...+.+.|+
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l--------~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPVL--------DDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT--------GGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--ccccc--------ccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCC
Confidence            3356788999999999999998742  11110        000111111111122222    123467788999999999


Q ss_pred             HHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCChhh
Q 039177          327 LNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALN-----KGLCTQSSM  383 (453)
Q Consensus       327 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~~~~~~  383 (453)
                      +++|...++.+.+.... +...|..++.+|.+.|+..+|++.|+++..     .|+.|...+
T Consensus        83 ~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             chHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999999999998766 889999999999999999999999998743     588888765

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.65  E-value=0.0005  Score=53.07  Aligned_cols=62  Identities=11%  Similarity=-0.060  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      .|..+..+|.+.|++++|+..+..+++.... +...|..+..+|...|++++|+..|++..+.
T Consensus        79 ~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          79 CVLNIGACKLKMSDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4555555666666666666666666665443 5556666666666666666666666666554

>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=97.62  E-value=0.015  Score=49.61  Aligned_cols=263  Identities=9%  Similarity=-0.015  Sum_probs=150.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHhhcccCCCCcHHHHHHHHHHHHHCCCccChHhHHHHHHHHHhcCCCChHHHHHH
Q 039177          114 TPEFIFIDLIKTYADAHRFQDSVNLFYKIPKFRINRVGFAIEILNCMINDGFCVDGKTCSLILSSVCEQRDLSSDELLGF  193 (453)
Q Consensus       114 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~a~~~  193 (453)
                      +|..-...+.+.|.+.|.++.|..+|..+..                           |..++..+.+.++.  ..|.++
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------------------------~~rl~~~~v~l~~~--~~avd~   62 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------------------------FGRLASTLVHLGEY--QAAVDG   62 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------------------------HHHHHHHHHTTTCH--HHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------------------------HHHHHHHHHhhccH--HHHHHH
Confidence            4555556677888899999999999887543                           66777788888887  777766


Q ss_pred             HHHHHHcCCCcChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          194 VQEMKKLGFCFGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLV  273 (453)
Q Consensus       194 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~  273 (453)
                      +..   .   -+..+|..+...+.+......|     .+.......+......++..|-..|.+++...+++...... .
T Consensus        63 ~~k---~---~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~  130 (336)
T d1b89a_          63 ARK---A---NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-R  130 (336)
T ss_dssp             HHH---H---TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-T
T ss_pred             HHH---c---CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-c
Confidence            543   2   2567899999999988766543     22233334466667789999999999999999999876432 4


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH----------HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 039177          274 PDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVI----------TYNTLLQALCKVRELNRLRELVKEMKWKGIV  343 (453)
Q Consensus       274 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~  343 (453)
                      .+...++-++..|++.+ .++..+.++....   .-|..          .|.-++-.|.+.|+++.|..+.-   ++  .
T Consensus       131 ~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~---~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~  201 (336)
T d1b89a_         131 AHMGMFTELAILYSKFK-PQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--P  201 (336)
T ss_dssp             CCHHHHHHHHHHHHTTC-HHHHHHHHHHHST---TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--T
T ss_pred             cchHHHHHHHHHHHHhC-hHHHHHHHHhccc---cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--c
Confidence            56778889999999876 3444444333211   12221          24556666777777776655432   22  1


Q ss_pred             cCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChh-----------hHHHHHHHHHhCCCHHHHHHHHHHHhhCCC
Q 039177          344 LNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSS-----------MFDETICGLCQRGLVRKALELLKQMADKDV  412 (453)
Q Consensus       344 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~-----------~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  412 (453)
                      ++..-....+..+.+.++.+...++.....+.  .|+..           --..++..+.+.++..-...+++...+.| 
T Consensus       202 ~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n-  278 (336)
T d1b89a_         202 TDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN-  278 (336)
T ss_dssp             TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC-
T ss_pred             hhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC-
Confidence            12222233445555555555555554444332  12110           11223555556666666666666655444 


Q ss_pred             CCCHHHHHHHHhchhcchh
Q 039177          413 SPGARVWEALLLSSVSKLD  431 (453)
Q Consensus       413 ~p~~~~~~~ll~a~~~~~~  431 (453)
                        +....+++...|....|
T Consensus       279 --~~~vn~al~~lyie~~d  295 (336)
T d1b89a_         279 --NKSVNESLNNLFITEED  295 (336)
T ss_dssp             --CHHHHHHHHHHHHHTTC
T ss_pred             --hHHHHHHHHHHHhCcch
Confidence              34566777777766665

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.60  E-value=0.00079  Score=51.89  Aligned_cols=80  Identities=6%  Similarity=-0.079  Sum_probs=59.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHH
Q 039177          276 VYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDG  355 (453)
Q Consensus       276 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  355 (453)
                      ...+..+..+|.+.|++++|+..+...++... .+...|..+..+|.+.|++++|+..|+..++..+. +......+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~  154 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            44566677788888999999999988887542 25668888888999999999999999988887544 55555555444


Q ss_pred             HH
Q 039177          356 LA  357 (453)
Q Consensus       356 ~~  357 (453)
                      ..
T Consensus       155 ~~  156 (169)
T d1ihga1         155 KQ  156 (169)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.55  E-value=0.0031  Score=48.33  Aligned_cols=63  Identities=16%  Similarity=0.069  Sum_probs=50.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          313 TYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKG  376 (453)
Q Consensus       313 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  376 (453)
                      +|+.+..+|.+.|++++|+..+...++..+. +...|..+..+|...|++++|...|+++.+.+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4666777788888888888888888887655 77888888888888888888888888887754

>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=97.50  E-value=0.00013  Score=67.57  Aligned_cols=114  Identities=8%  Similarity=-0.212  Sum_probs=60.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 039177          240 DIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPD-VITYNTLL  318 (453)
Q Consensus       240 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li  318 (453)
                      +...+..+...+.+.|+.+.|...+.......   ....+..+...+...|++++|...|++..+..  |+ ...|+.|.
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~--P~~~~~~~~Lg  193 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV--PSNGQPYNQLA  193 (497)
T ss_dssp             ------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTBSHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCchHHHHHHH
Confidence            44556666667777777777777666654421   13456667777777888888888887777743  44 45778888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhc
Q 039177          319 QALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASK  359 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  359 (453)
                      ..|...|+..+|...|.+.+.... |-..++..|...|.+.
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~~-~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVKF-PFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSSB-CCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHHh
Confidence            888888888888888777776543 4666777777666543

>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=97.42  E-value=0.00057  Score=51.17  Aligned_cols=115  Identities=9%  Similarity=-0.043  Sum_probs=59.7

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHH
Q 039177          288 KQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKV----------RELNRLRELVKEMKWKGIVLNLQTYSIMIDGLA  357 (453)
Q Consensus       288 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  357 (453)
                      +.+.+++|.+.|+...+... -+...+..+..+|...          +.+++|+..|+..++..+. +..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~P-~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCC-cchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHH
Confidence            33445555555555555331 1334444444444422          3345666666666665544 5566666666665


Q ss_pred             hcCC-----------HHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCC
Q 039177          358 SKGD-----------IIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKDV  412 (453)
Q Consensus       358 ~~g~-----------~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  412 (453)
                      ..|+           +++|.+.|++..+.  .|+...|..-+..      ..+|.+++.+..+.|+
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~------~~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM------TAKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH------HHTHHHHHHHHHHSSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHH------HHHHHHHHHHHHHHhc
Confidence            5432           45666666666653  3555554433322      2455556655555443

>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=97.37  E-value=0.00058  Score=51.11  Aligned_cols=114  Identities=13%  Similarity=0.013  Sum_probs=53.3

Q ss_pred             hcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 039177          218 KKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQ----------EDYVKAEELFDELLVLGLVPDVYTYNVYINGLC  287 (453)
Q Consensus       218 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~----------g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~  287 (453)
                      +.+.+++|++.|+...+..+. +..++..+..++...          +.+++|+..|++.++.. +.+..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~P~-~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPL-DADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCc-chHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            334456666666666554433 555555555555433          22345555555555432 223444554544444


Q ss_pred             hcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 039177          288 KQN-----------NVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKG  341 (453)
Q Consensus       288 ~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  341 (453)
                      ..|           .+++|.+.|+...+  +.|+...|..-+..+      .+|.+++.++.+.|
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            433           23455555555554  234444444333333      33444444444443

>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=97.37  E-value=2.8e-05  Score=72.12  Aligned_cols=117  Identities=13%  Similarity=-0.057  Sum_probs=65.8

Q ss_pred             cChhhHHHHHHHHHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHH
Q 039177          204 FGMVDYTNVIRSLVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYI  283 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li  283 (453)
                      .+...+..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...|.+..+.. +.+...|+.+.
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLA  193 (497)
T ss_dssp             -------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHH
Confidence            345567777778888888888887776655421   12456667778888888888888888887754 34456888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 039177          284 NGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVR  325 (453)
Q Consensus       284 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  325 (453)
                      ..|...|+..+|...|.+..... .|-..++..|...+.+..
T Consensus       194 ~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         194 ILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhh
Confidence            88888888888888888887654 356667777777766543

>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=97.34  E-value=0.00019  Score=59.94  Aligned_cols=121  Identities=10%  Similarity=-0.020  Sum_probs=57.7

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHH
Q 039177          287 CKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEAC  366 (453)
Q Consensus       287 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  366 (453)
                      .+.|++++|...+++.++... -|...+..+...|+..|++++|...++...+.... +...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~-~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE-YLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhccccHHHH
Confidence            345666666666666666432 24556666666666666666666666666665332 2333333333332222222111


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          367 GLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       367 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                      .-.......+-.++...+......+...|+.++|.+++++..+
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e  127 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEE  127 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh
Confidence            1100000001011112223334445566777777777766654

>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=97.31  E-value=0.00027  Score=58.96  Aligned_cols=53  Identities=17%  Similarity=0.238  Sum_probs=34.3

Q ss_pred             HhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          217 VKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL  270 (453)
Q Consensus       217 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  270 (453)
                      .+.|++++|+..+++..+..+. |...+..+...++..|++++|...++...+.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3456666666666666665444 6666666666666667777666666666653

>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=97.04  E-value=0.0097  Score=44.69  Aligned_cols=91  Identities=15%  Similarity=0.031  Sum_probs=56.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCC-Cc----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC--
Q 039177          319 QALCKVRELNRLRELVKEMKWKGI-VL----------NLQTYSIMIDGLASKGDIIEACGLLEEALNK-----GLCTQ--  380 (453)
Q Consensus       319 ~~~~~~~~~~~a~~~~~~~~~~~~-~p----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~~~~--  380 (453)
                      ..+.+.|++++|+..|.+.++... .|          ...+|+.+..+|.+.|++++|...+++....     ...++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            344455666666666666654311 11          1345667777777777777777777766542     11111  


Q ss_pred             ---hhhHHHHHHHHHhCCCHHHHHHHHHHHhh
Q 039177          381 ---SSMFDETICGLCQRGLVRKALELLKQMAD  409 (453)
Q Consensus       381 ---~~~~~~li~~~~~~g~~~~A~~~~~~m~~  409 (453)
                         ...+..+..+|...|++++|+..|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               22456667788888888888888888653

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.98  E-value=0.0071  Score=45.50  Aligned_cols=90  Identities=12%  Similarity=0.077  Sum_probs=58.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCC-C----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCcC---
Q 039177          285 GLCKQNNVEAGIKMIACMEELGSK-P----------DVITYNTLLQALCKVRELNRLRELVKEMKWK-----GIVLN---  345 (453)
Q Consensus       285 ~~~~~~~~~~a~~~~~~m~~~~~~-p----------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~p~---  345 (453)
                      .+.+.|++++|+..|++.++.... |          ...+|+.+..+|.+.|++++|...+++.++.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            344556666666666665542100 1          1346777788888888888888877776642     11111   


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 039177          346 --LQTYSIMIDGLASKGDIIEACGLLEEALN  374 (453)
Q Consensus       346 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~  374 (453)
                        ...+..+..+|...|++++|+..|++..+
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              22566778889999999999999988764

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.012  Score=39.86  Aligned_cols=26  Identities=31%  Similarity=0.359  Sum_probs=13.2

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          383 MFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       383 ~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      +++.+..+|.+.|++++|+..+++.+
T Consensus        48 ~l~~Lg~~~~~~g~~~~A~~~y~~aL   73 (95)
T d1tjca_          48 VLDYLSYAVYQQGDLDKALLLTKKLL   73 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHhcCChHHHHHHHHHHH
Confidence            34444555555555555555555544

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.22  E-value=0.032  Score=37.53  Aligned_cols=27  Identities=19%  Similarity=0.142  Sum_probs=11.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          314 YNTLLQALCKVRELNRLRELVKEMKWK  340 (453)
Q Consensus       314 ~~~li~~~~~~~~~~~a~~~~~~~~~~  340 (453)
                      +..+..+|.+.|++++|+..++++++.
T Consensus        49 l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          49 LDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            333444444444444444444444433

>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=95.72  E-value=0.18  Score=35.08  Aligned_cols=140  Identities=16%  Similarity=0.089  Sum_probs=86.5

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 039177          252 IVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLR  331 (453)
Q Consensus       252 ~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~  331 (453)
                      .-.|..++..+++.+....   .+..-||.+|--....-+-+...++++.+-+.   .|.          ..++++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHHH
Confidence            3457777777777777663   35566666666666666666666666665442   221          1223333332


Q ss_pred             HHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHhhCC
Q 039177          332 ELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMADKD  411 (453)
Q Consensus       332 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  411 (453)
                      ..+-.+-.     +...++..++...+.|+-+.-.++.+.+.+.+ .+++...-.+..+|.+.|...++-+++.+..++|
T Consensus        77 ~C~~~~n~-----~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            22221111     33344556677777888888888887766643 6677777777888888888888888888888877


Q ss_pred             CC
Q 039177          412 VS  413 (453)
Q Consensus       412 ~~  413 (453)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            64

>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=95.48  E-value=0.23  Score=34.56  Aligned_cols=140  Identities=16%  Similarity=0.140  Sum_probs=95.2

Q ss_pred             HHhcCChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCChhhHHHHHHHHHhcCCHHHH
Q 039177          216 LVKKEKVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVLGLVPDVYTYNVYINGLCKQNNVEAG  295 (453)
Q Consensus       216 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~~~~~~a  295 (453)
                      +.-.|.+++..+++.+....   .+..-||.+|--....-+-+...++++..-+   ..|..          .++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FDls----------~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLD----------KCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGG----------GCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhh---hcCch----------hhhcHHHH
Confidence            44568899999999988764   2667788888777777777777777766533   22322          23333333


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          296 IKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLASKGDIIEACGLLEEALNK  375 (453)
Q Consensus       296 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  375 (453)
                      ...+-.+-     .+...+...++...+.|.-++..++++++.+. -+|++...-.+..+|-+.|...++.+++.+.-++
T Consensus        76 v~C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          76 VECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            33332221     24455667777778888888888888887764 4557777777888888888888888888888877


Q ss_pred             CC
Q 039177          376 GL  377 (453)
Q Consensus       376 ~~  377 (453)
                      |+
T Consensus       150 G~  151 (161)
T d1wy6a1         150 GE  151 (161)
T ss_dssp             TC
T ss_pred             hH
Confidence            75

>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=95.33  E-value=0.29  Score=34.89  Aligned_cols=15  Identities=7%  Similarity=0.007  Sum_probs=7.0

Q ss_pred             CHHHHHHHHHHHHHC
Q 039177          326 ELNRLRELVKEMKWK  340 (453)
Q Consensus       326 ~~~~a~~~~~~~~~~  340 (453)
                      +.++|.++|+...+.
T Consensus        74 d~~~A~~~~~~aa~~   88 (133)
T d1klxa_          74 DLRKAAQYYSKACGL   88 (133)
T ss_dssp             CHHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHhhhhcc
Confidence            344444444444444

>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=95.21  E-value=0.32  Score=34.66  Aligned_cols=112  Identities=10%  Similarity=-0.016  Sum_probs=71.1

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCcCHHHHHHHHHHHHh----cCCHHHHH
Q 039177          291 NVEAGIKMIACMEELGSKPDVITYNTLLQALCKVRELNRLRELVKEMKWKGIVLNLQTYSIMIDGLAS----KGDIIEAC  366 (453)
Q Consensus       291 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~  366 (453)
                      ++++|.+.|++..+.|..   ..+..|.  .....+.++|...++...+.|   +...+..|-..|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            455566666665554421   1122221  123456778888888777765   45555666666654    45789999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHh----CCCHHHHHHHHHHHhhCCCC
Q 039177          367 GLLEEALNKGLCTQSSMFDETICGLCQ----RGLVRKALELLKQMADKDVS  413 (453)
Q Consensus       367 ~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~  413 (453)
                      ++|++..+.|   +......|-..|..    ..+.++|.++|++..+.|..
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            9999998887   33444455555555    45799999999998877643

>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=92.94  E-value=0.43  Score=33.30  Aligned_cols=71  Identities=11%  Similarity=0.062  Sum_probs=36.0

Q ss_pred             cCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHhCCCHHHHHHHHHHHhhCCCCCCHH
Q 039177          344 LNLQTYSIMIDGLASKG---DIIEACGLLEEALNKGLCTQ-SSMFDETICGLCQRGLVRKALELLKQMADKDVSPGAR  417 (453)
Q Consensus       344 p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  417 (453)
                      ++..+--....+++++.   ++++++.+|++..+.+ ..+ ...+-.|..+|.+.|++++|..+++.++  .+.|+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L--~ieP~n~  107 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF--EHERNNK  107 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH--HHCTTCH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH--ccCCCcH
Confidence            34444444444444433   3345666666665432 112 2334445556666666666666666666  3345433

>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=90.92  E-value=0.46  Score=31.18  Aligned_cols=63  Identities=13%  Similarity=0.269  Sum_probs=48.6

Q ss_pred             CcchHHHHHHHhhhcCCCCChhhHHHHHHHHHhcCCcchHHHHHHHHHHcCCCCCCHHHHHHHHH
Q 039177           60 QPHILSSLLHSFSIYNCEPPPEAYHFVIKTLAENSQFCDISSVLDHIEKRENFETPEFIFIDLIK  124 (453)
Q Consensus        60 ~~~~~~~ll~~~~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  124 (453)
                      +..-+..-+..+-..+..|++....+.+++|.+.+++..|.++++.+....|  .+..+|..+++
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            5556677777788889999999999999999999999999999998887643  23446655543

>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=88.91  E-value=2  Score=28.07  Aligned_cols=45  Identities=11%  Similarity=0.131  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHhCCCHHHHHHHHHHHh
Q 039177          364 EACGLLEEALNKGLCTQSSMFDETICGLCQRGLVRKALELLKQMA  408 (453)
Q Consensus       364 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  408 (453)
                      ++.+-++.+...++.|.+.+..+-+.+|.+.+++.-|+++|+-.+
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            444444455455555555555555555656666666665555554

>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=85.77  E-value=4  Score=28.14  Aligned_cols=67  Identities=16%  Similarity=0.154  Sum_probs=37.8

Q ss_pred             cChhhHHHHHHHHHhcC---ChhHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 039177          204 FGMVDYTNVIRSLVKKE---KVFDALGILNQMKSDGIKPDIVCYTMVLNGVIVQEDYVKAEELFDELLVL  270 (453)
Q Consensus       204 ~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  270 (453)
                      +++.+--....++++..   ++++++.+|+++.+.+..-....+-.|.-+|.+.|+++.|.+.++.+++.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            34445445555555443   34567777777665432111234445556677777777777777777663