Citrus Sinensis ID: 015590

---

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----
Protein Sequence
MILRSHFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSLAS
Secondary Structure (PSIPRED)
ccccccHHccccHHHHHHHHHcccccccccHHHHcccccccccHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEHHHHHHHcHHcccHHHHHHHHHHcHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHccccccEEEHHHHHHHcccccHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
milrshfaRNHRQSIIQSLSSASTITRKrtfalaspsashqdsdhhayklnhkdwlspTEVLKIFSNLRDPISVISVLNQyskrkdynpneALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETlfdmpsyncwpsvktFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYvldefpkqncepnvrtYSTLMHGLCEKGNVEEAFGLLERmesegidadtvTFNILISGLRKQGKVEEGMKLLERmkgkgcypnsaSYQEVLYGLLDKKRFPEAKELVGRMIcermspsfvSYKKLIHGLCNQKLVEDVDWVLKKMVQqgfvprmgmwREIVGCVtfgkdnrnrvyVTETVDSLAS
Flexible Loop (DISEMBL)
milrshfarnhrqsiiqslssastiTRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNqyskrkdynPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIsglrkqgkvEEGMKLLERmkgkgcypnSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQgfvprmgmwREIVGCvtfgkdnrnrvyVTETVDSLAS
Low Complexity Region (SEG)
MILRSHFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSLAS
Disordered region (IsUnstruct)
**********************************************AYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTE*******
Disordered Region (DISOPRED)
MILR**********IIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSLA*
Disordered Region (DISEMBL)
MILRSHFARNHRQSIIQSLSSASTITRKRTFA*************HAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSLAS
Disordered Region (DISPRO)
MILRSHFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVD****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MILRSHFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSLAS
Positional Conservation
no confident homologs detected

---

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	404	2.2.26 [Sep-21-2011]
Q9LUD6	405	Pentatricopeptide repeat-	yes	no	0.945	0.943	0.589	1e-131
Q9FNL2	472	Pentatricopeptide repeat-	no	no	0.799	0.684	0.292	1e-39
Q9LQQ1	459	Pentatricopeptide repeat-	no	no	0.896	0.788	0.283	3e-39
Q8LDU5	466	Pentatricopeptide repeat-	no	no	0.814	0.706	0.285	3e-38
O49436	660	Pentatricopeptide repeat-	no	no	0.740	0.453	0.309	4e-35
Q3E9F0	506	Pentatricopeptide repeat-	no	no	0.752	0.600	0.295	1e-34
Q9CA58	763	Putative pentatricopeptid	no	no	0.779	0.412	0.268	4e-34
Q9LFF1	754	Pentatricopeptide repeat-	no	no	0.898	0.481	0.240	1e-33
Q3EDF8	598	Pentatricopeptide repeat-	no	no	0.836	0.565	0.259	3e-33
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.732	0.405	0.257	4e-30

>sp|Q9LUD6|PP230_ARATH Pentatricopeptide repeat-containing protein At3g14580, mitochondrial OS=Arabidopsis thaliana GN=At3g14580 PE=2 SV=1

 Score =  469 bits (1206), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 227/385 (58%), Positives = 285/385 (74%), Gaps = 3/385 (0%)

Query: 1   MILRSHFARNHRQSIIQSLSSAST-ITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPT 59
           ++L +    N R+S  QSLSS+   I    +    + S+     D    +L HKDWL+P 
Sbjct: 6   LVLSATSNSNPRRS--QSLSSSGVRILSSSSSDRYTSSSQRYSGDDRLARLRHKDWLAPN 63

Query: 60  EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKV 119
           EVLKIF N++DP  ++     YSKRKDY P E+LY L+INK  QAK +D IE++M+ IK+
Sbjct: 64  EVLKIFDNVKDPSFLLPAYQHYSKRKDYQPTESLYALMINKFGQAKMYDEIEEVMRTIKL 123

Query: 120 EKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLY 179
           EK CRFS+ FFYN+++IYGN+AGRI++AIE LF MP + CWPS K+FN +LNLLVSAKL+
Sbjct: 124 EKRCRFSEEFFYNLMRIYGNLAGRINRAIEILFGMPDFGCWPSSKSFNFILNLLVSAKLF 183

Query: 180 GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTL 239
            EI  I+ SA KLGVEIDACCLNIL+KGLCE+GNLEAA  +LDEFP+Q   PNV T+S L
Sbjct: 184 DEIHKIFVSAPKLGVEIDACCLNILIKGLCESGNLEAALQLLDEFPQQKSRPNVMTFSPL 243

Query: 240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC 299
           + G C KG  EEAF LLERME E I+ DT+TFNILISGLRK+G+VEEG+ LLERMK KGC
Sbjct: 244 IRGFCNKGKFEEAFKLLERMEKERIEPDTITFNILISGLRKKGRVEEGIDLLERMKVKGC 303

Query: 300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDW 359
            PN  +YQEVLYGLLDKKR  EAKE++ +MI   M PSF+SYKK++ GLC  K V ++DW
Sbjct: 304 EPNPGTYQEVLYGLLDKKRNLEAKEMMSQMISWGMRPSFLSYKKMVLGLCETKSVVEMDW 363

Query: 360 VLKKMVQQGFVPRMGMWREIVGCVT 384
           VL++MV  GFVP+  MW ++V CV 
Sbjct: 364 VLRQMVNHGFVPKTLMWWKVVQCVV 388

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FNL2|PP418_ARATH Pentatricopeptide repeat-containing protein At5g46100 OS=Arabidopsis thaliana GN=At5g46100 PE=2 SV=1

 Score =  164 bits (414), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 96/328 (29%), Positives = 169/328 (51%), Gaps = 5/328 (1%)

Query: 56  LSPTEVLKIFSNLRDPISVISVLNQYSKR--KDYNPNEALYTLIINKLAQAKRFDAIEDI 113
           ++P++V+K+    +D    ++V +  +      Y  +++ +  ++ +L  A +F A ED+
Sbjct: 14  ITPSQVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSANKFKAAEDL 73

Query: 114 MQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL 173
           + R+K+E  C  S+    ++ + YG +  R   ++     M  ++C PS K +  VL +L
Sbjct: 74  IVRMKIEN-CVVSEDILLSICRGYGRVH-RPFDSLRVFHKMKDFDCDPSQKAYVTVLAIL 131

Query: 174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN-GNLEAAFYVLDEFPKQNCEPN 232
           V           Y +  ++G+      LN+L+K LC N G ++A   +  E PK+ C+P+
Sbjct: 132 VEENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMPKRGCDPD 191

Query: 233 VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE 292
             TY TL+ GLC  G ++EA  L   M  +      VT+  LI+GL     V+E M+ LE
Sbjct: 192 SYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKNVDEAMRYLE 251

Query: 293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQK 352
            MK KG  PN  +Y  ++ GL    R  +A EL   M+     P+ V+Y  LI GLC ++
Sbjct: 252 EMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTLITGLCKEQ 311

Query: 353 LVEDVDWVLKKMVQQGFVPRMGMWREIV 380
            +++   +L +M  QG  P  G++ +++
Sbjct: 312 KIQEAVELLDRMNLQGLKPDAGLYGKVI 339

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQQ1|PPR20_ARATH Pentatricopeptide repeat-containing protein At1g07740, mitochondrial OS=Arabidopsis thaliana GN=At1g07740 PE=2 SV=1

 Score =  163 bits (412), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 106/374 (28%), Positives = 191/374 (51%), Gaps = 12/374 (3%)

Query: 12  RQSIIQSLSSASTITRKRTFALASPSASHQDSDHH--AYKLNHKDWLSPTEVLKIFSNLR 69
           R+ +   L +   I  +R +  + P    + +  H   +K   K W      L     + 
Sbjct: 2   RRRLSSVLINNQCIASQRHYHTSRPEKPTKKASSHEPTHKFTRKPW-EEVPFLTDLKEIE 60

Query: 70  DPISVISVLNQYSK---RKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS 126
           DP   +S+ +QY +   R DY P+   Y+ +I KLA+++ FDA++ I++ ++   + R  
Sbjct: 61  DPEEALSLFHQYQEMGFRHDY-PS---YSSLIYKLAKSRNFDAVDQILRLVRYRNV-RCR 115

Query: 127 DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIY 186
           +  F  +I+ YG  AG + KAI+    + S++C  ++++ N ++N+LV      + +  +
Sbjct: 116 ESLFMGLIQHYGK-AGSVDKAIDVFHKITSFDCVRTIQSLNTLINVLVDNGELEKAKSFF 174

Query: 187 TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK 246
             A  + +  ++   NIL+KG  +  + EAA  V DE  +   +P+V TY++L+  LC  
Sbjct: 175 DGAKDMRLRPNSVSFNILIKGFLDKCDWEAACKVFDEMLEMEVQPSVVTYNSLIGFLCRN 234

Query: 247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASY 306
            ++ +A  LLE M  + I  + VTF +L+ GL  +G+  E  KL+  M+ +GC P   +Y
Sbjct: 235 DDMGKAKSLLEDMIKKRIRPNAVTFGLLMKGLCCKGEYNEAKKLMFDMEYRGCKPGLVNY 294

Query: 307 QEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ 366
             ++  L  + R  EAK L+G M   R+ P  V Y  L++ LC +  V +   VL +M  
Sbjct: 295 GILMSDLGKRGRIDEAKLLLGEMKKRRIKPDVVIYNILVNHLCTECRVPEAYRVLTEMQM 354

Query: 367 QGFVPRMGMWREIV 380
           +G  P    +R ++
Sbjct: 355 KGCKPNAATYRMMI 368

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LDU5|PP298_ARATH Pentatricopeptide repeat-containing protein At4g01400, mitochondrial OS=Arabidopsis thaliana GN=At4g01400 PE=2 SV=2

 Score =  159 bits (403), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 95/333 (28%), Positives = 181/333 (54%), Gaps = 4/333 (1%)

Query: 57  SPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQR 116
           SPT V K+ ++  DP+    + +  S++ ++  + + + ++I KL + + F+ I+D++ +
Sbjct: 50  SPTRVQKLIASQSDPLLAKEIFDYASQQPNFRHSRSSHLILILKLGRGRYFNLIDDVLAK 109

Query: 117 IKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSA 176
            +        + F Y +IK+Y   A    K + T + M  +N  P  K  N +L++LVS 
Sbjct: 110 HRSSGYPLTGEIFTY-LIKVYAE-AKLPEKVLSTFYKMLEFNFTPQPKHLNRILDVLVSH 167

Query: 177 KLYGEIQ-GIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRT 235
           + Y +    ++ S+   GV  +    N+L++  C N +L  A+ +  +  +++  P+V +
Sbjct: 168 RGYLQKAFELFKSSRLHGVMPNTRSYNLLMQAFCLNDDLSIAYQLFGKMLERDVVPDVDS 227

Query: 236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK 295
           Y  L+ G C KG V  A  LL+ M ++G   D +++  L++ L ++ ++ E  KLL RMK
Sbjct: 228 YKILIQGFCRKGQVNGAMELLDDMLNKGFVPDRLSYTTLLNSLCRKTQLREAYKLLCRMK 287

Query: 296 GKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVE 355
            KGC P+   Y  ++ G   + R  +A++++  M+    SP+ VSY+ LI GLC+Q + +
Sbjct: 288 LKGCNPDLVHYNTMILGFCREDRAMDARKVLDDMLSNGCSPNSVSYRTLIGGLCDQGMFD 347

Query: 356 DVDWVLKKMVQQGFVPRMGMWREIV-GCVTFGK 387
           +    L++M+ +GF P   +   +V G  +FGK
Sbjct: 348 EGKKYLEEMISKGFSPHFSVSNCLVKGFCSFGK 380

Arabidopsis thaliana (taxid: 3702)

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

 Score =  149 bits (376), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 95/307 (30%), Positives = 158/307 (51%), Gaps = 8/307 (2%)

Query: 68  LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD 127
           L  PIS   +     K   +   ++  + +I   A +  FD++E ++ RI++E       
Sbjct: 55  LEAPISE-KMFKSAPKMGSFKLGDSTLSSMIESYANSGDFDSVEKLLSRIRLENRVIIER 113

Query: 128 GFFYNVIKIYGNMAGRISKAIETLFDM-PSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIY 186
            F   V + YG  A    KA++    M   + C  SVK+FN VLN++++  LY      Y
Sbjct: 114 SFIV-VFRAYGK-AHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVIINEGLYHRGLEFY 171

Query: 187 ----TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG 242
                S   + +  +    N+++K LC+   ++ A  V    P++ C P+  TY TLM G
Sbjct: 172 DYVVNSNMNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKCLPDGYTYCTLMDG 231

Query: 243 LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN 302
           LC++  ++EA  LL+ M+SEG     V +N+LI GL K+G +    KL++ M  KGC PN
Sbjct: 232 LCKEERIDEAVLLLDEMQSEGCSPSPVIYNVLIDGLCKKGDLTRVTKLVDNMFLKGCVPN 291

Query: 303 SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLK 362
             +Y  +++GL  K +  +A  L+ RM+  +  P+ V+Y  LI+GL  Q+   D   +L 
Sbjct: 292 EVTYNTLIHGLCLKGKLDKAVSLLERMVSSKCIPNDVTYGTLINGLVKQRRATDAVRLLS 351

Query: 363 KMVQQGF 369
            M ++G+
Sbjct: 352 SMEERGY 358

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E9F0|PP392_ARATH Pentatricopeptide repeat-containing protein At5g18475 OS=Arabidopsis thaliana GN=At5g18475 PE=2 SV=1

 Score =  147 bits (371), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 94/318 (29%), Positives = 165/318 (51%), Gaps = 14/318 (4%)

Query: 55  WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIM 114
           ++S    + +    RDP  V+ + N+ S++K +N N A Y+++++ L + K+F A++ I+
Sbjct: 53  FISHESAVSLMKRERDPQGVLDIFNKASQQKGFNHNNATYSVLLDNLVRHKKFLAVDAIL 112

Query: 115 QRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSY--NCWPSVKTFNLVLNL 172
            ++K E  CRF +  F N+++ +      +   +  +F++        PS+   +  LNL
Sbjct: 113 HQMKYET-CRFQESLFLNLMRHFSR--SDLHDKVMEMFNLIQVIARVKPSLNAISTCLNL 169

Query: 173 LVSAKLYGEI----QGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN 228
           L+ +   GE+    + +  +   LG++ + C  NIL+K  C+NG++  AF V++E  +  
Sbjct: 170 LIDS---GEVNLSRKLLLYAKHNLGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSG 226

Query: 229 CE-PNVRTYSTLMHGLCEKGNVEEAFGLLERMES-EGIDADTVTFNILISGLRKQGKVEE 286
              PN  TYSTLM  L      +EA  L E M S EGI  D VTFN++I+G  + G+VE 
Sbjct: 227 ISYPNSITYSTLMDCLFAHSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVER 286

Query: 287 GMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIH 346
             K+L+ MK  GC PN  +Y  ++ G     +  EAK+    +    +    V Y  L++
Sbjct: 287 AKKILDFMKKNGCNPNVYNYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMN 346

Query: 347 GLCNQKLVEDVDWVLKKM 364
             C     ++   +L +M
Sbjct: 347 CFCRNGETDEAMKLLGEM 364

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CA58|PP120_ARATH Putative pentatricopeptide repeat-containing protein At1g74580 OS=Arabidopsis thaliana GN=At1g74580 PE=3 SV=1

 Score =  145 bits (367), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 85/316 (26%), Positives = 152/316 (48%), Gaps = 1/316 (0%)

Query: 56  LSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQ 115
           L P  V  +    +DP+  + + N   K   +    + Y  +I KL    +F+A+E+++ 
Sbjct: 5   LLPKHVTAVIKCQKDPMKALEMFNSMRKEVGFKHTLSTYRSVIEKLGYYGKFEAMEEVLV 64

Query: 116 RIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS 175
            ++        +G +   +K YG   G++ +A+     M  Y+C P+V ++N ++++LV 
Sbjct: 65  DMRENVGNHMLEGVYVGAMKNYGR-KGKVQEAVNVFERMDFYDCEPTVFSYNAIMSVLVD 123

Query: 176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRT 235
           +  + +   +Y      G+  D     I +K  C+     AA  +L+    Q CE NV  
Sbjct: 124 SGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMNVVA 183

Query: 236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK 295
           Y T++ G  E+    E + L  +M + G+     TFN L+  L K+G V+E  KLL+++ 
Sbjct: 184 YCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLDKVI 243

Query: 296 GKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVE 355
            +G  PN  +Y   + GL  +     A  +VG +I +   P  ++Y  LI+GLC     +
Sbjct: 244 KRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQ 303

Query: 356 DVDWVLKKMVQQGFVP 371
           + +  L KMV +G  P
Sbjct: 304 EAEVYLGKMVNEGLEP 319

Arabidopsis thaliana (taxid: 3702)

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

 Score =  144 bits (364), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 100/415 (24%), Positives = 192/415 (46%), Gaps = 52/415 (12%)

Query: 18  SLSSASTITRKR-TFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLR---DPIS 73
           S+S A T+T    +  L  PS++   +  H+  L+  D       +K+  +LR   D  +
Sbjct: 13  SISQAVTLTHHSFSLNLTPPSSTISFASPHSAALSSTD-------VKLLDSLRSQPDDSA 65

Query: 74  VISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV 133
            + + N  SK+ +++P  ALY  I+ +L ++  FD ++ I++ +K  + C      F  +
Sbjct: 66  ALRLFNLASKKPNFSPEPALYEEILLRLGRSGSFDDMKKILEDMKSSR-CEMGTSTFLIL 124

Query: 134 IKIYGN--MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAK 191
           I+ Y    +   I   ++ + D   +   P    +N +LNLLV       ++  +   + 
Sbjct: 125 IESYAQFELQDEILSVVDWMID--EFGLKPDTHFYNRMLNLLVDGNSLKLVEISHAKMSV 182

Query: 192 LGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM----------- 240
            G++ D    N+L+K LC    L  A  +L++ P     P+ +T++T+M           
Sbjct: 183 WGIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYIEEGDLDG 242

Query: 241 ------------------------HGLCEKGNVEEAFGLLERMESE-GIDADTVTFNILI 275
                                   HG C++G VE+A   ++ M ++ G   D  TFN L+
Sbjct: 243 ALRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQYTFNTLV 302

Query: 276 SGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS 335
           +GL K G V+  +++++ M  +G  P+  +Y  V+ GL       EA E++ +MI    S
Sbjct: 303 NGLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCS 362

Query: 336 PSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNR 390
           P+ V+Y  LI  LC +  VE+   + + +  +G +P +  +  ++  +   +++R
Sbjct: 363 PNTVTYNTLISTLCKENQVEEATELARVLTSKGILPDVCTFNSLIQGLCLTRNHR 417

May be involved in female gametophyte development.

Arabidopsis thaliana (taxid: 3702)

>sp|Q3EDF8|PPR28_ARATH Pentatricopeptide repeat-containing protein At1g09900 OS=Arabidopsis thaliana GN=At1g09900 PE=2 SV=1

 Score =  143 bits (360), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 91/351 (25%), Positives = 161/351 (45%), Gaps = 13/351 (3%)

Query: 44  DHHAYKLNHKDWLSPTEVLKIFSNL---RDPISVISVLNQYSKRKDYNPNEALYTLIINK 100
           ++  Y  N  D +  T +++ F  L   R    ++ +L          P+   Y ++I+ 
Sbjct: 126 ENMVYHGNVPDIIPCTTLIRGFCRLGKTRKAAKILEILEGSGAV----PDVITYNVMISG 181

Query: 101 LAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCW 160
             +A   +    ++ R+ V       D   YN I      +G++ +A+E L  M   +C+
Sbjct: 182 YCKAGEINNALSVLDRMSVS-----PDVVTYNTILRSLCDSGKLKQAMEVLDRMLQRDCY 236

Query: 161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV 220
           P V T+ +++         G    +       G   D    N+L+ G+C+ G L+ A   
Sbjct: 237 PDVITYTILIEATCRDSGVGHAMKLLDEMRDRGCTPDVVTYNVLVNGICKEGRLDEAIKF 296

Query: 221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK 280
           L++ P   C+PNV T++ ++  +C  G   +A  LL  M  +G     VTFNILI+ L +
Sbjct: 297 LNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKGFSPSVVTFNILINFLCR 356

Query: 281 QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS 340
           +G +   + +LE+M   GC PNS SY  +L+G   +K+   A E + RM+     P  V+
Sbjct: 357 KGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAIEYLERMVSRGCYPDIVT 416

Query: 341 YKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV-GCVTFGKDNR 390
           Y  ++  LC    VED   +L ++  +G  P +  +  ++ G    GK  +
Sbjct: 417 YNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGLAKAGKTGK 467

Arabidopsis thaliana (taxid: 3702)

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

 Score =  132 bits (332), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 84/326 (25%), Positives = 158/326 (48%), Gaps = 30/326 (9%)

Query: 85  KDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD---GFF----------- 130
           + + P++  Y  ++N L +  R DA +D+  RI   ++  F+    GF            
Sbjct: 316 RGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIPKPEIVIFNTLIHGFVTHGRLDDAKAV 375

Query: 131 -------YNVIK--------IYGNMA-GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLV 174
                  Y ++         IYG    G +  A+E L DM +  C P+V ++ ++++   
Sbjct: 376 LSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFC 435

Query: 175 SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVR 234
                 E   +    +  G++ +    N L+   C+   +  A  +  E P++ C+P+V 
Sbjct: 436 KLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVY 495

Query: 235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM 294
           T+++L+ GLCE   ++ A  LL  M SEG+ A+TVT+N LI+   ++G+++E  KL+  M
Sbjct: 496 TFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEARKLVNEM 555

Query: 295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLV 354
             +G   +  +Y  ++ GL       +A+ L  +M+ +  +PS +S   LI+GLC   +V
Sbjct: 556 VFQGSPLDEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISCNILINGLCRSGMV 615

Query: 355 EDVDWVLKKMVQQGFVPRMGMWREIV 380
           E+     K+MV +G  P +  +  ++
Sbjct: 616 EEAVEFQKEMVLRGSTPDIVTFNSLI 641

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	404
224056581	326	predicted protein [Populus trichocarpa]	0.804	0.996	0.733	1e-142
255561325	341	pentatricopeptide repeat-containing prot	0.792	0.938	0.722	1e-137
225462369	393	PREDICTED: pentatricopeptide repeat-cont	0.893	0.918	0.633	1e-135
147778708	393	hypothetical protein VITISV_028261 [Viti	0.910	0.936	0.627	1e-135
297830004	409	predicted protein [Arabidopsis lyrata su	0.930	0.919	0.609	1e-132
449456671	411	PREDICTED: pentatricopeptide repeat-cont	0.866	0.851	0.613	1e-130
15231886	405	pentatricopeptide repeat-containing prot	0.945	0.943	0.589	1e-129
357168491	392	PREDICTED: pentatricopeptide repeat-cont	0.943	0.971	0.482	1e-102
218195588	363	hypothetical protein OsI_17428 [Oryza sa	0.836	0.931	0.528	1e-102
326527465	363	predicted protein [Hordeum vulgare subsp	0.836	0.931	0.516	1e-102

>gi|224056581|ref|XP_002298921.1| predicted protein [Populus trichocarpa] gi|222846179|gb|EEE83726.1| predicted protein [Populus trichocarpa]

 Score =  511 bits (1317), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 239/326 (73%), Positives = 281/326 (86%), Gaps = 1/326 (0%)

Query: 49  KLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFD 108
           KL HKDWLSP EV+KIF NL+DP S+ISV NQYSKRKDY PNEALYT +INKLAQAK FD
Sbjct: 1   KLTHKDWLSPNEVIKIFENLKDPNSIISVWNQYSKRKDYKPNEALYTQVINKLAQAKNFD 60

Query: 109 AIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMP-SYNCWPSVKTFN 167
           AIEDIMQ+IK++K CR S+ FF+NVIKIYG +AGRI KA+ETLFDMP  YNCWP+VK+FN
Sbjct: 61  AIEDIMQKIKLDKSCRLSNDFFHNVIKIYGQLAGRIKKAMETLFDMPKGYNCWPNVKSFN 120

Query: 168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ 227
           LVLNLLVSAK++  +  +Y  A  LG+EID C LNIL+KGLCENG+LEAAF VLDEFPKQ
Sbjct: 121 LVLNLLVSAKVFDVVHEVYLQAPMLGIEIDVCSLNILIKGLCENGDLEAAFNVLDEFPKQ 180

Query: 228 NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG 287
            CEPNVRT+STLMHGLC+KG V+EAFGLLERME EGIDADT+TFNILISGLRKQGKV EG
Sbjct: 181 RCEPNVRTFSTLMHGLCKKGKVDEAFGLLERMEKEGIDADTITFNILISGLRKQGKVVEG 240

Query: 288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHG 347
           ++LLERM  KGC PN+ SYQE+LYGLLD +++ E KE + RMI + + PSFVSYKKL+HG
Sbjct: 241 LELLERMNIKGCEPNAGSYQEILYGLLDAEKYVEGKEFMVRMIGQGVDPSFVSYKKLVHG 300

Query: 348 LCNQKLVEDVDWVLKKMVQQGFVPRM 373
           LC ++L+ D+DWVLK+M +QGFVP+M
Sbjct: 301 LCKERLLRDLDWVLKQMARQGFVPKM 326

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561325|ref|XP_002521673.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223539064|gb|EEF40660.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  494 bits (1271), Expect = e-137,   Method: Compositional matrix adjust.
 Identities = 232/321 (72%), Positives = 276/321 (85%), Gaps = 1/321 (0%)

Query: 62  LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK 121
           ++IF +++DP SV SV +QY+ RKDY PNEALYTL+INKLAQAK FDAIEDIMQRIK+EK
Sbjct: 1   MRIFESIKDPNSVFSVWDQYTNRKDYKPNEALYTLVINKLAQAKNFDAIEDIMQRIKLEK 60

Query: 122 LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMP-SYNCWPSVKTFNLVLNLLVSAKLYG 180
            CR S+GFFYNVIKIYG++AGRI  AI+TLFDMP  YNCWP VKTFNLVLNLLVSA+++ 
Sbjct: 61  SCRLSNGFFYNVIKIYGHLAGRIKVAIDTLFDMPRGYNCWPDVKTFNLVLNLLVSARIFD 120

Query: 181 EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM 240
            +  IY  A  LGVEIDACCLNIL+KGLCENG+LEAAFYVLDEFPKQ C+PNVRT+STLM
Sbjct: 121 VVHEIYEKAPILGVEIDACCLNILIKGLCENGDLEAAFYVLDEFPKQRCKPNVRTFSTLM 180

Query: 241 HGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY 300
           H LC KG V +AFGLL+RME+EGI+ DT+TFNILISGLRK+G++EEGM+LL +MK KGC 
Sbjct: 181 HYLCAKGEVNQAFGLLDRMENEGIEVDTITFNILISGLRKRGRIEEGMELLVKMKLKGCE 240

Query: 301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWV 360
           PN+ SYQEVLYGLLD  +F EAK+ + RM+CE   PSFVSYKKLI GLC +KL+ +VD V
Sbjct: 241 PNAGSYQEVLYGLLDAGKFSEAKDFMDRMVCEGNGPSFVSYKKLIDGLCKEKLIGEVDCV 300

Query: 361 LKKMVQQGFVPRMGMWREIVG 381
           LK+M++QGFVP+MGMW+ IVG
Sbjct: 301 LKQMLKQGFVPKMGMWKHIVG 321

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225462369|ref|XP_002267684.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14580, mitochondrial-like [Vitis vinifera]

 Score =  489 bits (1259), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 233/368 (63%), Positives = 289/368 (78%), Gaps = 7/368 (1%)

Query: 13  QSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPI 72
           +S+ +S     T+ +K TF    P    +       +L+HKDWLSP EVLKIF  LR+P 
Sbjct: 14  RSVSRSALIHPTLIQKSTFFSTFPPDDLK-------RLDHKDWLSPREVLKIFDGLRNPE 66

Query: 73  SVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN 132
           SV+ VL+  SKRKD+ PNEALYTL+INKLAQA+ FDAIED+++ +K++K CR SD FFYN
Sbjct: 67  SVMPVLDSVSKRKDFKPNEALYTLVINKLAQARMFDAIEDVIKTLKIDKQCRLSDVFFYN 126

Query: 133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL 192
           VIK+YGN+AG+  +A+ETLFDMP ++CWPSVKTFNLVLN+LVSAK +  +  +Y  A +L
Sbjct: 127 VIKVYGNVAGQPDRAVETLFDMPKFHCWPSVKTFNLVLNMLVSAKRFDVVHKVYAGAPEL 186

Query: 193 GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEA 252
           GVEIDACCLNIL+KGLC +GN++AA  +LDE+PKQ C PNVRT+STLMHGLCE G VE A
Sbjct: 187 GVEIDACCLNILVKGLCRSGNVDAACELLDEYPKQRCRPNVRTFSTLMHGLCESGRVEGA 246

Query: 253 FGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYG 312
            GLLERME EG+  DTV FNILISGLRK+G+VEEGM+LL RMK KGCYPN+ SYQEVLYG
Sbjct: 247 LGLLERMEREGVYPDTVVFNILISGLRKRGRVEEGMELLGRMKLKGCYPNAGSYQEVLYG 306

Query: 313 LLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR 372
           +LD  RF +AKE + +MI E +SPSFVSYK +I+GLC + LV DV W+LK+MV+QGFVP 
Sbjct: 307 VLDTGRFGKAKEFMCQMIDEGVSPSFVSYKMMIYGLCKENLVADVVWILKQMVEQGFVPE 366

Query: 373 MGMWREIV 380
             MWR I+
Sbjct: 367 RWMWRRIL 374

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147778708|emb|CAN60667.1| hypothetical protein VITISV_028261 [Vitis vinifera]

 Score =  488 bits (1255), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 236/376 (62%), Positives = 291/376 (77%), Gaps = 8/376 (2%)

Query: 5   SHFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKI 64
           S F R +R S+ +S     T+ +K  F    P    +       +L+HKDWLSP EVLKI
Sbjct: 7   SIFLRIYR-SVSRSALIHPTLIQKSIFFSTFPPDDLK-------RLDHKDWLSPREVLKI 58

Query: 65  FSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCR 124
           F  LR+P SV+ VL+   KRKD+ PNEALYTL+INKLAQA+ FDAIED+++ +K++K CR
Sbjct: 59  FDGLRNPESVMPVLDSVCKRKDFKPNEALYTLVINKLAQARMFDAIEDVIKTLKIDKQCR 118

Query: 125 FSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQG 184
            SD FFYNVIK+YGN+AGR  +A+ETLFDMP ++CWPSVKTFNLVLN+LVSAK +  +  
Sbjct: 119 LSDVFFYNVIKVYGNVAGRPDRAVETLFDMPKFHCWPSVKTFNLVLNMLVSAKRFDVVHK 178

Query: 185 IYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC 244
           +Y  A +LGVEIDACCLNIL+KGLC +GN++AA  +LDE+PKQ C PNVRT+STLMHGLC
Sbjct: 179 VYAGAPELGVEIDACCLNILVKGLCRSGNVDAACELLDEYPKQRCRPNVRTFSTLMHGLC 238

Query: 245 EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSA 304
           E G VE A GLLERME EG+  DTV FNILISGLRK+G+VEEGM+LL RMK KGCYPN+ 
Sbjct: 239 ESGRVEGALGLLERMEREGVYPDTVVFNILISGLRKRGRVEEGMELLGRMKLKGCYPNAG 298

Query: 305 SYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKM 364
           SYQEVLYG+LD  RF +AKE + +MI E +SPSFVSYK +I+GLC + LV DV W+LK+M
Sbjct: 299 SYQEVLYGVLDTGRFGKAKEFMCQMIDEGVSPSFVSYKMVIYGLCKENLVADVVWILKQM 358

Query: 365 VQQGFVPRMGMWREIV 380
           V+QGFVP   MWR I+
Sbjct: 359 VEQGFVPERWMWRRIL 374

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297830004|ref|XP_002882884.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297328724|gb|EFH59143.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  478 bits (1231), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 231/379 (60%), Positives = 281/379 (74%), Gaps = 3/379 (0%)

Query: 8   ARNHRQSIIQSLSSASTITRKRTFALA--SPSASHQDSDHHAYKLNHKDWLSPTEVLKIF 65
           A N      QSLS AST+    + +    +PS+     D    +L HKDWL+P EVLKIF
Sbjct: 11  ASNSNPGRPQSLS-ASTVRLLSSSSSDRYTPSSQRYSGDDKLARLKHKDWLAPNEVLKIF 69

Query: 66  SNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRF 125
            N++DP  ++     YSKRKDY P E+LY L+INK  QAK FD IE++M  IK+EK CRF
Sbjct: 70  ENVKDPSFLMPAYQHYSKRKDYQPTESLYALLINKFGQAKMFDEIEEVMSTIKLEKRCRF 129

Query: 126 SDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGI 185
           S+ FFYN+++IYGN+AGRI++AIE LF MP + CWPS K+FN +LNLLVSAKL+ EI  I
Sbjct: 130 SEDFFYNLMRIYGNLAGRINRAIEILFGMPDFGCWPSAKSFNFILNLLVSAKLFDEIHKI 189

Query: 186 YTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE 245
           + SA KLGVEIDACCLNIL+KGLCE+GNLEAA  +LDEFPKQ   PNV T+S L+ G C 
Sbjct: 190 FVSAPKLGVEIDACCLNILIKGLCESGNLEAALQLLDEFPKQKSRPNVMTFSPLIRGFCN 249

Query: 246 KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSAS 305
           KG  EEAF LLERME E I+ DT+TFNILISGLRK+G+VEEG+ LLERMK KGC PN  +
Sbjct: 250 KGKFEEAFKLLERMEKERIEPDTITFNILISGLRKKGRVEEGIDLLERMKLKGCEPNPGT 309

Query: 306 YQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV 365
           YQEVLYGLLDKKR  EAKE++ +MI   M PSF+SYKK++ GLC  K V ++DWVL+KMV
Sbjct: 310 YQEVLYGLLDKKRNLEAKEMMSQMISWGMRPSFLSYKKMVLGLCETKSVAEMDWVLRKMV 369

Query: 366 QQGFVPRMGMWREIVGCVT 384
             GFVP+ GMW + V CV 
Sbjct: 370 NHGFVPKTGMWWKAVCCVV 388

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456671|ref|XP_004146072.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14580, mitochondrial-like [Cucumis sativus] gi|449503658|ref|XP_004162112.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14580, mitochondrial-like [Cucumis sativus]

 Score =  469 bits (1208), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 216/352 (61%), Positives = 281/352 (79%), Gaps = 2/352 (0%)

Query: 48  YKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRF 107
           +KL+H+DWLSP EV+ I   ++ P SV++ L+Q+S RKDY PN+ +YTL++++LA+ + F
Sbjct: 48  HKLSHRDWLSPNEVINIIQQIQHPSSVLAFLHQWSNRKDYKPNKEIYTLVVSRLAEGRLF 107

Query: 108 DAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN 167
           D IE +M RIK E+  R SD FFY+VIKIYGN+AGR++KAI+TLFDMP+YNCWPSVKTFN
Sbjct: 108 DDIEKVMLRIKAERNFRLSDEFFYHVIKIYGNVAGRLNKAIDTLFDMPNYNCWPSVKTFN 167

Query: 168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ 227
            VLNLLVSAK++  +  +Y  A KLG+EIDACCLNIL+KGLC++GNL+AA  VLDEFP+Q
Sbjct: 168 FVLNLLVSAKMFDVVHEVYMGAPKLGIEIDACCLNILVKGLCQSGNLDAALKVLDEFPQQ 227

Query: 228 NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG 287
            C PNVRT+STL+HGLCE G +  A  L  +ME+EG+  DT+TFNILISGLRK+ ++EE 
Sbjct: 228 RCRPNVRTFSTLLHGLCENGELGRALELFCKMENEGVCPDTITFNILISGLRKKKRIEEA 287

Query: 288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHG 347
           ++LL RMK KGCYPN+ +YQEVLYGLLD  +F EA++ + RMI E M PSFVSYKKL+ G
Sbjct: 288 IELLGRMKLKGCYPNAGTYQEVLYGLLDTGKFIEARDCMHRMISEGMDPSFVSYKKLLSG 347

Query: 348 LCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETV 399
           LC +KL EDVDWVLK+MV QGFVP++GMW+ I+ C+  G  N   + +T+ V
Sbjct: 348 LCKKKLTEDVDWVLKQMVMQGFVPKVGMWKVILRCMLSG--NEECIDITDEV 397

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15231886|ref|NP_188076.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75274210|sp|Q9LUD6.1|PP230_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At3g14580, mitochondrial; Flags: Precursor gi|9294380|dbj|BAB02390.1| unnamed protein product [Arabidopsis thaliana] gi|119935972|gb|ABM06049.1| At3g14580 [Arabidopsis thaliana] gi|332642020|gb|AEE75541.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  469 bits (1206), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 227/385 (58%), Positives = 285/385 (74%), Gaps = 3/385 (0%)

Query: 1   MILRSHFARNHRQSIIQSLSSAST-ITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPT 59
           ++L +    N R+S  QSLSS+   I    +    + S+     D    +L HKDWL+P 
Sbjct: 6   LVLSATSNSNPRRS--QSLSSSGVRILSSSSSDRYTSSSQRYSGDDRLARLRHKDWLAPN 63

Query: 60  EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKV 119
           EVLKIF N++DP  ++     YSKRKDY P E+LY L+INK  QAK +D IE++M+ IK+
Sbjct: 64  EVLKIFDNVKDPSFLLPAYQHYSKRKDYQPTESLYALMINKFGQAKMYDEIEEVMRTIKL 123

Query: 120 EKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLY 179
           EK CRFS+ FFYN+++IYGN+AGRI++AIE LF MP + CWPS K+FN +LNLLVSAKL+
Sbjct: 124 EKRCRFSEEFFYNLMRIYGNLAGRINRAIEILFGMPDFGCWPSSKSFNFILNLLVSAKLF 183

Query: 180 GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTL 239
            EI  I+ SA KLGVEIDACCLNIL+KGLCE+GNLEAA  +LDEFP+Q   PNV T+S L
Sbjct: 184 DEIHKIFVSAPKLGVEIDACCLNILIKGLCESGNLEAALQLLDEFPQQKSRPNVMTFSPL 243

Query: 240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC 299
           + G C KG  EEAF LLERME E I+ DT+TFNILISGLRK+G+VEEG+ LLERMK KGC
Sbjct: 244 IRGFCNKGKFEEAFKLLERMEKERIEPDTITFNILISGLRKKGRVEEGIDLLERMKVKGC 303

Query: 300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDW 359
            PN  +YQEVLYGLLDKKR  EAKE++ +MI   M PSF+SYKK++ GLC  K V ++DW
Sbjct: 304 EPNPGTYQEVLYGLLDKKRNLEAKEMMSQMISWGMRPSFLSYKKMVLGLCETKSVVEMDW 363

Query: 360 VLKKMVQQGFVPRMGMWREIVGCVT 384
           VL++MV  GFVP+  MW ++V CV 
Sbjct: 364 VLRQMVNHGFVPKTLMWWKVVQCVV 388

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357168491|ref|XP_003581673.1| PREDICTED: pentatricopeptide repeat-containing protein At3g14580, mitochondrial-like [Brachypodium distachyon]

 Score =  378 bits (971), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 189/392 (48%), Positives = 253/392 (64%), Gaps = 11/392 (2%)

Query: 22  ASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQY 81
           A  + R+         ++  D  +   +L+HKDWL+P EVLKIF+N+RD   + SV  + 
Sbjct: 2   ARALARRTVPPFLRLRSTVGDDSYWMGRLDHKDWLAPNEVLKIFANIRDASLITSVFRKA 61

Query: 82  SKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA 141
             R+DY P+EALY+L+I++LA A+RF  +E+++ R +VEK  RFSD FFY +IK+YGN+A
Sbjct: 62  CARRDYKPSEALYSLMIDRLACARRFGDVEELLVRARVEKF-RFSDEFFYRLIKMYGNVA 120

Query: 142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL 201
               +A+E L+ MP YNCWPS KTFN VL++LV  + Y  I  +Y SA  LGV +D CC 
Sbjct: 121 NHPERAMEMLYAMPGYNCWPSTKTFNYVLHMLVCKRQYEVIHEVYESAPWLGVTLDTCCF 180

Query: 202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES 261
           NIL+KGLC+ G  + A  +L E PKQ C PNV TYSTLMH LC+ G V++AF L ERM  
Sbjct: 181 NILIKGLCQFGKFDEAISLLHEMPKQECLPNVVTYSTLMHFLCQHGRVDKAFELFERMRK 240

Query: 262 EGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE 321
           E IDADTV +NILISGL ++GKV     + + M  +GCYPNS +YQ +L  LL  + F E
Sbjct: 241 EEIDADTVVYNILISGLCREGKVTIAFDMFKSMSSEGCYPNSGTYQVLLDSLLTSRNFTE 300

Query: 322 AKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVG 381
           AK+LV  M  E + PSF SYK LI GLC+   +ED   + K+MV QGF+PRMG W +++ 
Sbjct: 301 AKDLVCMMSAEGLRPSFSSYKLLIDGLCSVNCLEDGHLIFKQMVDQGFIPRMGTWTKLLT 360

Query: 382 --CVTFGKD--------NRNRVYVTETVDSLA 403
              +T+  D        NR  V + E VD  A
Sbjct: 361 SMSLTYTGDFLDNLIHLNRELVLLVEPVDQPA 392

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218195588|gb|EEC78015.1| hypothetical protein OsI_17428 [Oryza sativa Indica Group]

 Score =  378 bits (970), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/339 (52%), Positives = 235/339 (69%), Gaps = 1/339 (0%)

Query: 42  DSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKL 101
           D  +   +L+HKDWLSP E+LKIF+N+RDP  +     +   R+DY PNEALY+L+I++L
Sbjct: 22  DDGYWIGRLDHKDWLSPNELLKIFANIRDPSLITGSFKRACDRRDYKPNEALYSLMIDRL 81

Query: 102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWP 161
           A  +RF  +E+++ R + E   RFSD FFY +IK+YGN+A    KAIETLF MP YNCWP
Sbjct: 82  ASCRRFSDVEEVLARARAESF-RFSDEFFYRLIKMYGNVANHPQKAIETLFAMPGYNCWP 140

Query: 162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVL 221
           S KTFN VL++LV  + Y  +  +Y SA++LGV +D CC NIL+KGLC+ G  + A  +L
Sbjct: 141 STKTFNYVLHMLVCKRQYEVVHEVYLSASRLGVTLDTCCFNILVKGLCQFGKFDDAISLL 200

Query: 222 DEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ 281
            E PKQ C PNV TYSTLM+ LC+ G V++AF L ERM+ E I AD V +NILISGL ++
Sbjct: 201 YEMPKQGCVPNVTTYSTLMNFLCQHGQVDKAFELCERMQKEDIAADAVVYNILISGLCRE 260

Query: 282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSY 341
            +V E   L + M  KGCYPNS +YQ +L GLL   +F EAK LV  M  ERM P F S+
Sbjct: 261 QRVTEAFNLFKSMVPKGCYPNSGTYQVLLDGLLSSGKFVEAKGLVSMMRAERMRPGFSSF 320

Query: 342 KKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV 380
           K LI GLC+   ++D   VLK+MV+QGFVPR+G W ++V
Sbjct: 321 KLLIDGLCSVNCLDDAHLVLKQMVEQGFVPRVGTWTKLV 359

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326527465|dbj|BAK08007.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  377 bits (968), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 175/339 (51%), Positives = 234/339 (69%), Gaps = 1/339 (0%)

Query: 42  DSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKL 101
           D  H   +L+H+DWL+P EVLKIF+++RD   + SV  +   R+DY P+EALY L+I++L
Sbjct: 22  DDGHWIGRLDHRDWLAPNEVLKIFASIRDAALITSVFRKACARRDYKPSEALYGLMIDRL 81

Query: 102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWP 161
           A A+RF  +E+++ R + E+  RFSD FFY +IK+YGN+A    KA+ETL+ M  Y CWP
Sbjct: 82  AGARRFGDVEELLARARAERF-RFSDDFFYRLIKMYGNVANHPEKAMETLYAMSEYGCWP 140

Query: 162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVL 221
           S KTFN VL++LV  + Y  +  +Y+SA +LGVE+D CC NIL+KGLC+ G    A  +L
Sbjct: 141 STKTFNYVLHMLVCRRQYEVVHEVYSSAPRLGVELDTCCFNILIKGLCQFGRFNEALSLL 200

Query: 222 DEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ 281
           DE PKQ+C PN  TYSTLMH LC    V+EAF L ERM  E IDADTV +NIL+SGL ++
Sbjct: 201 DEMPKQDCRPNAMTYSTLMHFLCRNCRVDEAFELFERMRKEEIDADTVVYNILVSGLCRE 260

Query: 282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSY 341
           G+V     L + M  +GC+PNS +YQ +L GL+  K F EAK+LVG M  E + PSF SY
Sbjct: 261 GRVTSAYDLFKSMSSQGCHPNSGTYQVLLDGLVASKNFVEAKDLVGMMSAESLRPSFSSY 320

Query: 342 KKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV 380
           K LI G C+   ++D   VLK+MV QGFVPRM  W +++
Sbjct: 321 KLLIDGFCSVNCLDDAHHVLKQMVDQGFVPRMSTWTKLL 359

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	404
TAIR|locus:2089581	405	AT3G14580 "AT3G14580" [Arabido	0.955	0.953	0.587	3.2e-120
TAIR|locus:2161408	472	AT5G46100 "AT5G46100" [Arabido	0.799	0.684	0.292	1.8e-39
TAIR|locus:2026560	459	AT1G07740 "AT1G07740" [Arabido	0.893	0.786	0.285	2.3e-39
TAIR|locus:2119747	660	EMB1025 "embryo defective 1025	0.769	0.471	0.306	3.8e-37
TAIR|locus:1006230454	506	AT5G18475 "AT5G18475" [Arabido	0.861	0.687	0.294	9.2e-36
TAIR|locus:2019085	763	AT1G74580 "AT1G74580" [Arabido	0.779	0.412	0.268	8.5e-35
TAIR|locus:2024296	598	AT1G09900 "AT1G09900" [Arabido	0.747	0.505	0.283	7.8e-34
TAIR|locus:2083976	754	MEE40 "maternal effect embryo	0.896	0.480	0.253	2e-32
TAIR|locus:2171352	535	AT5G16420 "AT5G16420" [Arabido	0.851	0.642	0.243	1.9e-31
TAIR|locus:2036833	408	PPR336 "pentatricopeptide repe	0.806	0.799	0.233	2e-30

TAIR|locus:2089581 AT3G14580 "AT3G14580" [Arabidopsis thaliana (taxid:3702)]

 Score = 1183 (421.5 bits), Expect = 3.2e-120, P = 3.2e-120
 Identities = 229/390 (58%), Positives = 288/390 (73%)

Query:     1 MILRSHFARNHRQSIIQSLSSAST-ITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPT 59
             ++L +    N R+S  QSLSS+   I    +    + S+     D    +L HKDWL+P 
Sbjct:     6 LVLSATSNSNPRRS--QSLSSSGVRILSSSSSDRYTSSSQRYSGDDRLARLRHKDWLAPN 63

Query:    60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKV 119
             EVLKIF N++DP  ++     YSKRKDY P E+LY L+INK  QAK +D IE++M+ IK+
Sbjct:    64 EVLKIFDNVKDPSFLLPAYQHYSKRKDYQPTESLYALMINKFGQAKMYDEIEEVMRTIKL 123

Query:   120 EKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLY 179
             EK CRFS+ FFYN+++IYGN+AGRI++AIE LF MP + CWPS K+FN +LNLLVSAKL+
Sbjct:   124 EKRCRFSEEFFYNLMRIYGNLAGRINRAIEILFGMPDFGCWPSSKSFNFILNLLVSAKLF 183

Query:   180 GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTL 239
              EI  I+ SA KLGVEIDACCLNIL+KGLCE+GNLEAA  +LDEFP+Q   PNV T+S L
Sbjct:   184 DEIHKIFVSAPKLGVEIDACCLNILIKGLCESGNLEAALQLLDEFPQQKSRPNVMTFSPL 243

Query:   240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC 299
             + G C KG  EEAF LLERME E I+ DT+TFNILISGLRK+G+VEEG+ LLERMK KGC
Sbjct:   244 IRGFCNKGKFEEAFKLLERMEKERIEPDTITFNILISGLRKKGRVEEGIDLLERMKVKGC 303

Query:   300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDW 359
              PN  +YQEVLYGLLDKKR  EAKE++ +MI   M PSF+SYKK++ GLC  K V ++DW
Sbjct:   304 EPNPGTYQEVLYGLLDKKRNLEAKEMMSQMISWGMRPSFLSYKKMVLGLCETKSVVEMDW 363

Query:   360 VLKKMVQQGFVPRMGMWREIVGCVTFGKDN 389
             VL++MV  GFVP+  MW ++V CV   K+N
Sbjct:   364 VLRQMVNHGFVPKTLMWWKVVQCVV-SKNN 392

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2161408 AT5G46100 "AT5G46100" [Arabidopsis thaliana (taxid:3702)]

 Score = 421 (153.3 bits), Expect = 1.8e-39, P = 1.8e-39
 Identities = 96/328 (29%), Positives = 169/328 (51%)

Query:    56 LSPTEVLKIFSNLRDPISVISVLNQYSKR--KDYNPNEALYTLIINKLAQAKRFDAIEDI 113
             ++P++V+K+    +D    ++V +  +      Y  +++ +  ++ +L  A +F A ED+
Sbjct:    14 ITPSQVIKLMRAEKDVEKSMAVFDSATAEYANGYVHDQSSFGYMVLRLVSANKFKAAEDL 73

Query:   114 MQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL 173
             + R+K+E  C  S+    ++ + YG +  R   ++     M  ++C PS K +  VL +L
Sbjct:    74 IVRMKIEN-CVVSEDILLSICRGYGRVH-RPFDSLRVFHKMKDFDCDPSQKAYVTVLAIL 131

Query:   174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN-GNLEAAFYVLDEFPKQNCEPN 232
             V           Y +  ++G+      LN+L+K LC N G ++A   +  E PK+ C+P+
Sbjct:   132 VEENQLNLAFKFYKNMREIGLPPTVASLNVLIKALCRNDGTVDAGLKIFLEMPKRGCDPD 191

Query:   233 VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE 292
               TY TL+ GLC  G ++EA  L   M  +      VT+  LI+GL     V+E M+ LE
Sbjct:   192 SYTYGTLISGLCRFGRIDEAKKLFTEMVEKDCAPTVVTYTSLINGLCGSKNVDEAMRYLE 251

Query:   293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQK 352
              MK KG  PN  +Y  ++ GL    R  +A EL   M+     P+ V+Y  LI GLC ++
Sbjct:   252 EMKSKGIEPNVFTYSSLMDGLCKDGRSLQAMELFEMMMARGCRPNMVTYTTLITGLCKEQ 311

Query:   353 LVEDVDWVLKKMVQQGFVPRMGMWREIV 380
              +++   +L +M  QG  P  G++ +++
Sbjct:   312 KIQEAVELLDRMNLQGLKPDAGLYGKVI 339

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026560 AT1G07740 "AT1G07740" [Arabidopsis thaliana (taxid:3702)]

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 107/375 (28%), Positives = 192/375 (51%)

Query:    12 RQSIIQSLSSASTITRKRTFALASPSASHQDSDHH--AYKLNHKDWLSPTEVLKIFSNLR 69
             R+ +   L +   I  +R +  + P    + +  H   +K   K W      L     + 
Sbjct:     2 RRRLSSVLINNQCIASQRHYHTSRPEKPTKKASSHEPTHKFTRKPW-EEVPFLTDLKEIE 60

Query:    70 DPISVISVLNQYSK---RKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKL-CRF 125
             DP   +S+ +QY +   R DY P+   Y+ +I KLA+++ FDA++ I++ ++   + CR 
Sbjct:    61 DPEEALSLFHQYQEMGFRHDY-PS---YSSLIYKLAKSRNFDAVDQILRLVRYRNVRCR- 115

Query:   126 SDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGI 185
              +  F  +I+ YG  AG + KAI+    + S++C  ++++ N ++N+LV      + +  
Sbjct:   116 -ESLFMGLIQHYGK-AGSVDKAIDVFHKITSFDCVRTIQSLNTLINVLVDNGELEKAKSF 173

Query:   186 YTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE 245
             +  A  + +  ++   NIL+KG  +  + EAA  V DE  +   +P+V TY++L+  LC 
Sbjct:   174 FDGAKDMRLRPNSVSFNILIKGFLDKCDWEAACKVFDEMLEMEVQPSVVTYNSLIGFLCR 233

Query:   246 KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSAS 305
               ++ +A  LLE M  + I  + VTF +L+ GL  +G+  E  KL+  M+ +GC P   +
Sbjct:   234 NDDMGKAKSLLEDMIKKRIRPNAVTFGLLMKGLCCKGEYNEAKKLMFDMEYRGCKPGLVN 293

Query:   306 YQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV 365
             Y  ++  L  + R  EAK L+G M   R+ P  V Y  L++ LC +  V +   VL +M 
Sbjct:   294 YGILMSDLGKRGRIDEAKLLLGEMKKRRIKPDVVIYNILVNHLCTECRVPEAYRVLTEMQ 353

Query:   366 QQGFVPRMGMWREIV 380
              +G  P    +R ++
Sbjct:   354 MKGCKPNAATYRMMI 368

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2119747 EMB1025 "embryo defective 1025" [Arabidopsis thaliana (taxid:3702)]

 Score = 404 (147.3 bits), Expect = 3.8e-37, P = 3.8e-37
 Identities = 98/320 (30%), Positives = 165/320 (51%)

Query:    56 LSPTEVLKIFSN-LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIM 114
             +SP   +++  N L  PIS   +     K   +   ++  + +I   A +  FD++E ++
Sbjct:    42 VSPNPSMEVVENPLEAPISE-KMFKSAPKMGSFKLGDSTLSSMIESYANSGDFDSVEKLL 100

Query:   115 QRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDM-PSYNCWPSVKTFNLVLNLL 173
              RI++E        F   V + YG  A    KA++    M   + C  SVK+FN VLN++
Sbjct:   101 SRIRLENRVIIERSFIV-VFRAYGK-AHLPDKAVDLFHRMVDEFRCKRSVKSFNSVLNVI 158

Query:   174 VSAKLYGEIQGIY----TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC 229
             ++  LY      Y     S   + +  +    N+++K LC+   ++ A  V    P++ C
Sbjct:   159 INEGLYHRGLEFYDYVVNSNMNMNISPNGLSFNLVIKALCKLRFVDRAIEVFRGMPERKC 218

Query:   230 EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMK 289
              P+  TY TLM GLC++  ++EA  LL+ M+SEG     V +N+LI GL K+G +    K
Sbjct:   219 LPDGYTYCTLMDGLCKEERIDEAVLLLDEMQSEGCSPSPVIYNVLIDGLCKKGDLTRVTK 278

Query:   290 LLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLC 349
             L++ M  KGC PN  +Y  +++GL  K +  +A  L+ RM+  +  P+ V+Y  LI+GL 
Sbjct:   279 LVDNMFLKGCVPNEVTYNTLIHGLCLKGKLDKAVSLLERMVSSKCIPNDVTYGTLINGLV 338

Query:   350 NQKLVEDVDWVLKKMVQQGF 369
              Q+   D   +L  M ++G+
Sbjct:   339 KQRRATDAVRLLSSMEERGY 358

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:1006230454 AT5G18475 "AT5G18475" [Arabidopsis thaliana (taxid:3702)]

 Score = 386 (140.9 bits), Expect = 9.2e-36, P = 9.2e-36
 Identities = 106/360 (29%), Positives = 180/360 (50%)

Query:    11 HRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKD-WLSPTEVLKIFSNLR 69
             HR+    S S  S I         SP     +S     + N K  ++S    + +    R
Sbjct:    11 HRRFSSSSRSWVSPICFSEKKKKPSPPP---ESSISPVETNPKTKFISHESAVSLMKRER 67

Query:    70 DPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF 129
             DP  V+ + N+ S++K +N N A Y+++++ L + K+F A++ I+ ++K E  CRF +  
Sbjct:    68 DPQGVLDIFNKASQQKGFNHNNATYSVLLDNLVRHKKFLAVDAILHQMKYET-CRFQESL 126

Query:   130 FYNVIKIYGNMAGRISKAIETLFDMPSY--NCWPSVKTFNLVLNLLV-SAKLYGEIQGIY 186
             F N+++ +   +    K +E +F++        PS+   +  LNLL+ S ++    + + 
Sbjct:   127 FLNLMRHFSR-SDLHDKVME-MFNLIQVIARVKPSLNAISTCLNLLIDSGEVNLSRKLLL 184

Query:   187 TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCE-PNVRTYSTLMHGLCE 245
              +   LG++ + C  NIL+K  C+NG++  AF V++E  +     PN  TYSTLM  L  
Sbjct:   185 YAKHNLGLQPNTCIFNILVKHHCKNGDINFAFLVVEEMKRSGISYPNSITYSTLMDCLFA 244

Query:   246 KGNVEEAFGLLERMES-EGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSA 304
                 +EA  L E M S EGI  D VTFN++I+G  + G+VE   K+L+ MK  GC PN  
Sbjct:   245 HSRSKEAVELFEDMISKEGISPDPVTFNVMINGFCRAGEVERAKKILDFMKKNGCNPNVY 304

Query:   305 SYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKM 364
             +Y  ++ G     +  EAK+    +    +    V Y  L++  C     ++   +L +M
Sbjct:   305 NYSALMNGFCKVGKIQEAKQTFDEVKKTGLKLDTVGYTTLMNCFCRNGETDEAMKLLGEM 364

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2019085 AT1G74580 "AT1G74580" [Arabidopsis thaliana (taxid:3702)]

 Score = 385 (140.6 bits), Expect = 8.5e-35, P = 8.5e-35
 Identities = 85/316 (26%), Positives = 152/316 (48%)

Query:    56 LSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQ 115
             L P  V  +    +DP+  + + N   K   +    + Y  +I KL    +F+A+E+++ 
Sbjct:     5 LLPKHVTAVIKCQKDPMKALEMFNSMRKEVGFKHTLSTYRSVIEKLGYYGKFEAMEEVLV 64

Query:   116 RIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS 175
              ++        +G +   +K YG   G++ +A+     M  Y+C P+V ++N ++++LV 
Sbjct:    65 DMRENVGNHMLEGVYVGAMKNYGRK-GKVQEAVNVFERMDFYDCEPTVFSYNAIMSVLVD 123

Query:   176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRT 235
             +  + +   +Y      G+  D     I +K  C+     AA  +L+    Q CE NV  
Sbjct:   124 SGYFDQAHKVYMRMRDRGITPDVYSFTIRMKSFCKTSRPHAALRLLNNMSSQGCEMNVVA 183

Query:   236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK 295
             Y T++ G  E+    E + L  +M + G+     TFN L+  L K+G V+E  KLL+++ 
Sbjct:   184 YCTVVGGFYEENFKAEGYELFGKMLASGVSLCLSTFNKLLRVLCKKGDVKECEKLLDKVI 243

Query:   296 GKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVE 355
              +G  PN  +Y   + GL  +     A  +VG +I +   P  ++Y  LI+GLC     +
Sbjct:   244 KRGVLPNLFTYNLFIQGLCQRGELDGAVRMVGCLIEQGPKPDVITYNNLIYGLCKNSKFQ 303

Query:   356 DVDWVLKKMVQQGFVP 371
             + +  L KMV +G  P
Sbjct:   304 EAEVYLGKMVNEGLEP 319

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 372 (136.0 bits), Expect = 7.8e-34, P = 7.8e-34
 Identities = 87/307 (28%), Positives = 156/307 (50%)

Query:    75 ISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI 134
             + VL++  +R  Y P+   YT++I    +         ++  ++ ++ C   D   YNV+
Sbjct:   224 MEVLDRMLQRDCY-PDVITYTILIEATCRDSGVGHAMKLLDEMR-DRGCT-PDVVTYNVL 280

Query:   135 KIYGNMA-GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG 193
              + G    GR+ +AI+ L DMPS  C P+V T N++L  + S   + + + +     + G
Sbjct:   281 -VNGICKEGRLDEAIKFLNDMPSSGCQPNVITHNIILRSMCSTGRWMDAEKLLADMLRKG 339

Query:   194 VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAF 253
                     NIL+  LC  G L  A  +L++ P+  C+PN  +Y+ L+HG C++  ++ A 
Sbjct:   340 FSPSVVTFNILINFLCRKGLLGRAIDILEKMPQHGCQPNSLSYNPLLHGFCKEKKMDRAI 399

Query:   254 GLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL 313
               LERM S G   D VT+N +++ L K GKVE+ +++L ++  KGC P   +Y  V+ GL
Sbjct:   400 EYLERMVSRGCYPDIVTYNTMLTALCKDGKVEDAVEILNQLSSKGCSPVLITYNTVIDGL 459

Query:   314 LDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM 373
                 +  +A +L+  M  + + P  ++Y  L+ GL  +  V++      +  + G  P  
Sbjct:   460 AKAGKTGKAIKLLDEMRAKDLKPDTITYSSLVGGLSREGKVDEAIKFFHEFERMGIRPNA 519

Query:   374 GMWREIV 380
               +  I+
Sbjct:   520 VTFNSIM 526

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0016020 "membrane" evidence=IDA

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

 Score = 363 (132.8 bits), Expect = 2.0e-32, P = 2.0e-32
 Identities = 96/379 (25%), Positives = 184/379 (48%)

Query:    18 SLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLR---DPISV 74
             S+S A T+T   +F+L     S   S    +   H   LS T+V K+  +LR   D  + 
Sbjct:    13 SISQAVTLTH-HSFSLNLTPPSSTIS----FASPHSAALSSTDV-KLLDSLRSQPDDSAA 66

Query:    75 ISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI 134
             + + N  SK+ +++P  ALY  I+ +L ++  FD ++ I++ +K  + C      F  +I
Sbjct:    67 LRLFNLASKKPNFSPEPALYEEILLRLGRSGSFDDMKKILEDMKSSR-CEMGTSTFLILI 125

Query:   135 KIYGN--MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL 192
             + Y    +   I   ++ + D   +   P    +N +LNLLV       ++  +   +  
Sbjct:   126 ESYAQFELQDEILSVVDWMID--EFGLKPDTHFYNRMLNLLVDGNSLKLVEISHAKMSVW 183

Query:   193 GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEA 252
             G++ D    N+L+K LC    L  A  +L++ P     P+ +T++T+M G  E+G+++ A
Sbjct:   184 GIKPDVSTFNVLIKALCRAHQLRPAILMLEDMPSYGLVPDEKTFTTVMQGYIEEGDLDGA 243

Query:   253 FGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK-GCYPNSASYQEVLY 311
               + E+M   G     V+ N+++ G  K+G+VE+ +  ++ M  + G +P+  ++  ++ 
Sbjct:   244 LRIREQMVEFGCSWSNVSVNVIVHGFCKEGRVEDALNFIQEMSNQDGFFPDQYTFNTLVN 303

Query:   312 GLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP 371
             GL        A E++  M+ E   P   +Y  +I GLC    V++   VL +M+ +   P
Sbjct:   304 GLCKAGHVKHAIEIMDVMLQEGYDPDVYTYNSVISGLCKLGEVKEAVEVLDQMITRDCSP 363

Query:   372 RMGMWREIVGCVTFGKDNR 390
                 +  ++   T  K+N+
Sbjct:   364 NTVTYNTLIS--TLCKENQ 380

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:2171352 AT5G16420 "AT5G16420" [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 1.9e-31, P = 1.9e-31
 Identities = 86/353 (24%), Positives = 172/353 (48%)

Query:    25 ITRKRTFALASPSASHQDSDHHAYKLNHKDW---LSPTEVLKIFSNLRDPISVISVLNQY 81
             +  +R F+ ++ +AS Q   +   K   K W   L P  ++ + +  ++    + +    
Sbjct:    15 VASRRLFSASASAASLQQ--YCTEKPPIKPWPQRLFPKRLVSMITQQQNIDLALQIFLYA 72

Query:    82 SK-RKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVE-KLCRFSDGFFYNVIKIYGN 139
              K    +  N   Y  I+ KL++A+ FD +E +M  ++      +  +  F ++++ YG 
Sbjct:    73 GKSHPGFTHNYDTYHSILFKLSRARAFDPVESLMADLRNSYPPIKCGENLFIDLLRNYG- 131

Query:   140 MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIY-TSAAKLGVEIDA 198
             +AGR   ++     +P +    SV++ N +LN+L+  + +  +  ++  S    G+  + 
Sbjct:   132 LAGRYESSMRIFLRIPDFGVKRSVRSLNTLLNVLIQNQRFDLVHAMFKNSKESFGITPNI 191

Query:   199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLER 258
                N+L+K LC+  ++E+A+ VLDE P     PN+ TY+T++ G   +G++E A  +LE 
Sbjct:   192 FTCNLLVKALCKKNDIESAYKVLDEIPSMGLVPNLVTYTTILGGYVARGDMESAKRVLEE 251

Query:   259 MESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKR 318
             M   G   D  T+ +L+ G  K G+  E   +++ M+     PN  +Y  ++  L  +K+
Sbjct:   252 MLDRGWYPDATTYTVLMDGYCKLGRFSEAATVMDDMEKNEIEPNEVTYGVMIRALCKEKK 311

Query:   319 FPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP 371
               EA+ +   M+     P      K+I  LC    V++   + +KM++   +P
Sbjct:   312 SGEARNMFDEMLERSFMPDSSLCCKVIDALCEDHKVDEACGLWRKMLKNNCMP 364

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2036833 PPR336 "pentatricopeptide repeat 336" [Arabidopsis thaliana (taxid:3702)]

 Score = 313 (115.2 bits), Expect = 2.0e-30, Sum P(2) = 2.0e-30
 Identities = 77/330 (23%), Positives = 157/330 (47%)

Query:    62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK 121
             L +  + +DP  ++ +    S   D   +   ++  +  LA+ K F A+ +++      +
Sbjct:    51 LSLLKSEKDPDRILEICRAASLTPDCRIDRIAFSAAVENLAEKKHFSAVSNLLDGFIENR 110

Query:   122 LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGE 181
                 S+ F  + I +Y   A  +  ++    D+  +    +VK+ N +L   + AK Y E
Sbjct:   111 PDLKSERFAAHAIVLYAQ-ANMLDHSLRVFRDLEKFEISRTVKSLNALLFACLVAKDYKE 169

Query:   182 IQGIYTSAAKL-GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM 240
              + +Y    K+ G+E D    N ++K  CE+G+  +++ ++ E  ++  +PN  ++  ++
Sbjct:   170 AKRVYIEMPKMYGIEPDLETYNRMIKVFCESGSASSSYSIVAEMERKGIKPNSSSFGLMI 229

Query:   241 HGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY 300
              G   +   +E   +L  M+  G++    T+NI I  L K+ K +E   LL+ M   G  
Sbjct:   230 SGFYAEDKSDEVGKVLAMMKDRGVNIGVSTYNIRIQSLCKRKKSKEAKALLDGMLSAGMK 289

Query:   301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWV 360
             PN+ +Y  +++G  ++  F EAK+L   M+     P    Y  LI+ LC     E    +
Sbjct:   290 PNTVTYSHLIHGFCNEDDFEEAKKLFKIMVNRGCKPDSECYFTLIYYLCKGGDFETALSL 349

Query:   361 LKKMVQQGFVPRMGMWREIVGCVTFGKDNR 390
              K+ +++ +VP   + + +V  +   KD++
Sbjct:   350 CKESMEKNWVPSFSIMKSLVNGLA--KDSK 377

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0016020 "membrane" evidence=IDA

GO:0006333 "chromatin assembly or disassembly" 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)
Q9LUD6	PP230_ARATH	No assigned EC number	0.5896	0.9455	0.9432	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

Your Input: gw1.I.5047.1 hypothetical protein (326 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	404
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-08
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-07
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	1e-06
pfam01535	31	pfam01535, PPR, PPR repeat	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002

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

 Score = 72.1 bits (178), Expect = 3e-16
 Identities = 25/50 (50%), Positives = 33/50 (66%)

Query: 231 PNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK 280
           P+V TY+TL+ G C+KG VEEA  L   M+  GI  +  T++ILI GL K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 75.7 bits (186), Expect = 1e-14
 Identities = 74/350 (21%), Positives = 146/350 (41%), Gaps = 35/350 (10%)

Query: 85  KDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN-VIKIYGNMAGR 143
           K+  P+  ++  +I+   Q+   D   D++  +K E      D      ++K   N AG+
Sbjct: 536 KNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN-AGQ 594

Query: 144 ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQ---GIYTSAAKLGVEIDACC 200
           + +A E    +  YN   + + + + +N   S    G+      IY    K GV+ D   
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVN---SCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME 260
            + L+      G+L+ AF +L +  KQ  +    +YS+LM       N ++A  L E ++
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711

Query: 261 SEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFP 320
           S  +     T N LI+ L +  ++ + +++L  MK  G  PN+ +Y  +L     K    
Sbjct: 712 SIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDAD 771

Query: 321 EAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDV------------------DW--- 359
              +L+ +   + + P+ V  + +  GLC ++  +                     W   
Sbjct: 772 VGLDLLSQAKEDGIKPNLVMCRCIT-GLCLRRFEKACALGEPVVSFDSGRPQIENKWTSW 830

Query: 360 ---VLKKMVQQGFVPRMGMWREIVGCVTFGKDN--RNRVYVTETVDSLAS 404
              V ++ +  G +P M +  +++GC+    D   RNR+     + + + 
Sbjct: 831 ALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQ 880

Length = 1060

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

 Score = 61.7 bits (151), Expect = 1e-12
 Identities = 19/43 (44%), Positives = 27/43 (62%)

Query: 202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC 244
           N L+ G C+ G +E A  + +E  K+  +PNV TYS L+ GLC
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 58.2 bits (142), Expect = 2e-11
 Identities = 23/47 (48%), Positives = 30/47 (63%)

Query: 267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL 313
           D VT+N LI G  K+GKVEE +KL   MK +G  PN  +Y  ++ GL
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 57.4 bits (140), Expect = 3e-11
 Identities = 17/34 (50%), Positives = 24/34 (70%)

Query: 227 QNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME 260
           +  +P+V TY+TL+ GLC  G V+EA  LL+ ME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 62.2 bits (151), Expect = 2e-10
 Identities = 47/169 (27%), Positives = 75/169 (44%), Gaps = 14/169 (8%)

Query: 130 FYNVIKIYGNM--AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYT 187
           F+   K    +  A R +K I            P++ TFN+++++  S++       +  
Sbjct: 412 FFKACKKQRAVKEAFRFAKLIRN----------PTLSTFNMLMSVCASSQDIDGALRVLR 461

Query: 188 SAAKLGVEIDACCLNILLKGLC-ENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK 246
              + G++ D C L   L   C ++G ++A F V  E      E NV T+  L+ G    
Sbjct: 462 LVQEAGLKAD-CKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARA 520

Query: 247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK 295
           G V +AFG    M S+ +  D V FN LIS   + G V+    +L  MK
Sbjct: 521 GQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK 569

Length = 1060

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

 Score = 54.5 bits (131), Expect = 6e-08
 Identities = 37/146 (25%), Positives = 61/146 (41%), Gaps = 6/146 (4%)

Query: 185 IYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC 244
           I+    + G+  D    N LL      G +    Y  ++F   + E +V +++ L+ G  
Sbjct: 511 IHAHVLRTGIGFDGFLPNALLDLYVRCGRMN---YAWNQF--NSHEKDVVSWNILLTGYV 565

Query: 245 EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK-GCYPNS 303
             G    A  L  RM   G++ D VTF  L+    + G V +G++    M+ K    PN 
Sbjct: 566 AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNL 625

Query: 304 ASYQEVLYGLLDKKRFPEAKELVGRM 329
             Y  V+  L    +  EA   + +M
Sbjct: 626 KHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 47.0 bits (113), Expect = 2e-07
 Identities = 15/33 (45%), Positives = 24/33 (72%)

Query: 263 GIDADTVTFNILISGLRKQGKVEEGMKLLERMK 295
           G+  D VT+N LI GL + G+V+E ++LL+ M+
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 45.5 bits (109), Expect = 4e-07
 Identities = 17/35 (48%), Positives = 24/35 (68%)

Query: 269 VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS 303
           VT+N LI GL K G+VEE ++L + MK +G  P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 50.6 bits (121), Expect = 9e-07
 Identities = 37/166 (22%), Positives = 76/166 (45%), Gaps = 11/166 (6%)

Query: 132 NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAK 191
           +++  Y  + G   +A+   ++M       S+  F   + + + ++L   ++    + A 
Sbjct: 295 SMLAGYA-LHGYSEEALCLYYEMRDSGV--SIDQFTFSIMIRIFSRL-ALLEHAKQAHAG 350

Query: 192 L---GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN 248
           L   G  +D      L+    + G +E A  V D  P++N    + +++ L+ G    G 
Sbjct: 351 LIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKN----LISWNALIAGYGNHGR 406

Query: 249 VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM 294
             +A  + ERM +EG+  + VTF  ++S  R  G  E+G ++ + M
Sbjct: 407 GTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM 452

Length = 697

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

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 17/35 (48%), Positives = 23/35 (65%)

Query: 234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADT 268
            TY+TL+ GLC+ G VEEA  L + M+  GI+ D 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 44.4 bits (106), Expect = 1e-06
 Identities = 17/31 (54%), Positives = 22/31 (70%)

Query: 269 VTFNILISGLRKQGKVEEGMKLLERMKGKGC 299
           VT+N LISG  K GK+EE ++L + MK 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|144943 pfam01535, PPR, PPR repeat

 Score = 43.6 bits (104), Expect = 2e-06
 Identities = 12/30 (40%), Positives = 21/30 (70%)

Query: 235 TYSTLMHGLCEKGNVEEAFGLLERMESEGI 264
           TY++L+ G C+ G +EEA  L + M+ +G+
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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 49.5 bits (118), Expect = 3e-06
 Identities = 31/128 (24%), Positives = 54/128 (42%), Gaps = 1/128 (0%)

Query: 224 FPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGK 283
           F K    P + T++ LM       +++ A  +L  ++  G+ AD   +  LIS   K GK
Sbjct: 428 FAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGK 487

Query: 284 VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKK 343
           V+   ++   M   G   N  ++  ++ G     +  +A    G M  + + P  V +  
Sbjct: 488 VDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNA 547

Query: 344 LIHGLCNQ 351
           LI   C Q
Sbjct: 548 LISA-CGQ 554

Length = 1060

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

 Score = 47.2 bits (112), Expect = 1e-05
 Identities = 42/200 (21%), Positives = 68/200 (34%), Gaps = 49/200 (24%)

Query: 83  KRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG 142
           K+K   P+E  ++ +++    A   D   +I+Q  +         G     +  Y ++ G
Sbjct: 641 KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR-------KQGIKLGTV-SYSSLMG 692

Query: 143 RIS------KAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI 196
             S      KA+E   D+ S    P+V T                               
Sbjct: 693 ACSNAKNWKKALELYEDIKSIKLRPTVSTM------------------------------ 722

Query: 197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLL 256
                N L+  LCE   L  A  VL E  +    PN  TYS L+     K + +    LL
Sbjct: 723 -----NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLL 777

Query: 257 ERMESEGIDADTVTFNILIS 276
            + + +GI  + V    +  
Sbjct: 778 SQAKEDGIKPNLVMCRCITG 797

Length = 1060

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

 Score = 40.4 bits (96), Expect = 2e-05
 Identities = 12/31 (38%), Positives = 18/31 (58%)

Query: 193 GVEIDACCLNILLKGLCENGNLEAAFYVLDE 223
           G++ D    N L+ GLC  G ++ A  +LDE
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDE 32

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

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

 Score = 45.6 bits (108), Expect = 3e-05
 Identities = 41/153 (26%), Positives = 72/153 (47%), Gaps = 7/153 (4%)

Query: 140 MAGRISKAIETLFDMPSYNCWPSV--KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID 197
             GR  +A+E LF++    C  ++   T++ ++   ++ K    ++ +Y      G E D
Sbjct: 99  ACGRHREALE-LFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPD 157

Query: 198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE 257
              +N +L    + G L  A  + DE P    E N+ ++ T++ GL + GN  EAF L  
Sbjct: 158 QYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 258 RMESEGIDADTVTFNILISGLRKQGKVEEGMKL 290
            M  +G DA+  TF +++      G    G +L
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQL 246

Length = 697

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

 Score = 39.8 bits (94), Expect = 5e-05
 Identities = 12/35 (34%), Positives = 19/35 (54%)

Query: 199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNV 233
              N L+ GLC+ G +E A  +  E  ++  EP+V
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.9 bits (94), Expect = 5e-05
 Identities = 10/32 (31%), Positives = 20/32 (62%)

Query: 233 VRTYSTLMHGLCEKGNVEEAFGLLERMESEGI 264
           + TY+ L+  L + G+ + A  +LE M++ G+
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGL 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 44.5 bits (105), Expect = 9e-05
 Identities = 46/215 (21%), Positives = 93/215 (43%), Gaps = 21/215 (9%)

Query: 171 NLLVSAKLYG---EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ 227
           ++L    L+G   E   +Y      GV ID    +I+++       LE A        + 
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT 354

Query: 228 NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG 287
               ++   + L+    + G +E+A  + +RM  + +    +++N LI+G    G+  + 
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNL----ISWNALIAGYGNHGRGTKA 410

Query: 288 MKLLERMKGKGCYPNSASYQEVL-----YGLLDKKRFPEAKELVGRMI-CERMSPSFVSY 341
           +++ ERM  +G  PN  ++  VL      GL +     +  E+   M    R+ P  + Y
Sbjct: 411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSE-----QGWEIFQSMSENHRIKPRAMHY 465

Query: 342 KKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMW 376
             +I  L  + L+++   ++++     F P + MW
Sbjct: 466 ACMIELLGREGLLDEAYAMIRR---APFKPTVNMW 497

Length = 697

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

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 53/229 (23%), Positives = 89/229 (38%), Gaps = 50/229 (21%)

Query: 183 QGIYTSAAKLGVEID---ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTL 239
           Q ++    K GV  D   +C L I +   C  G++E A  V D  P    E     ++++
Sbjct: 244 QQLHCCVLKTGVVGDTFVSCAL-IDMYSKC--GDIEDARCVFDGMP----EKTTVAWNSM 296

Query: 240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI---------------------SGL 278
           + G    G  EEA  L   M   G+  D  TF+I+I                     +G 
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 279 R--------------KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKE 324
                          K G++E+   + +RM  K    N  S+  ++ G  +  R  +A E
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVE 412

Query: 325 LVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-QGFVPR 372
           +  RMI E ++P+ V++  ++       L E    + + M +     PR
Sbjct: 413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPR 461

Length = 697

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

 Score = 41.0 bits (96), Expect = 0.001
 Identities = 31/145 (21%), Positives = 51/145 (35%), Gaps = 41/145 (28%)

Query: 202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK--------------- 246
           N  L+ LC +G LE A  +L+   +     +   Y  L   LCE                
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFR-LCEWKRAVEEGSRVCSRAL 113

Query: 247 ---------------------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVE 285
                                G +  A+ +  +M     + D  ++N+L+ G  K G  +
Sbjct: 114 SSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMP----ERDLFSWNVLVGGYAKAGYFD 169

Query: 286 EGMKLLERMKGKGCYPNSASYQEVL 310
           E + L  RM   G  P+  ++  VL
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVL 194

Length = 857

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

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 268 TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP 301
             T+N L+  L K G  +  + +LE MK  G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 35.2 bits (82), Expect = 0.002
 Identities = 10/32 (31%), Positives = 15/32 (46%)

Query: 200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEP 231
             N LL  L + G+ + A  VL+E      +P
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	404
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
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.92
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.79
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.79
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.77
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.76
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.75
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.74
PRK14574	822	hmsH outer membrane protein; Provisional	99.72
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.71
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.68
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.67
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.67
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.65
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.63
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.63
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.63
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.61
PRK14574	822	hmsH outer membrane protein; Provisional	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.59
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.56
KOG2076	895	consensus RNA polymerase III transcription factor	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.52
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.51
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.49
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG2076	895	consensus RNA polymerase III transcription factor	99.47
PF13041	50	PPR_2: PPR repeat family	99.46
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.45
PRK12370	553	invasion protein regulator; Provisional	99.44
PRK12370	553	invasion protein regulator; Provisional	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.42
KOG1126	638	consensus DNA-binding cell division cycle control	99.42
PF13041	50	PPR_2: PPR repeat family	99.41
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.38
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.37
KOG2003	840	consensus TPR repeat-containing protein [General f	99.37
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.37
KOG1129	478	consensus TPR repeat-containing protein [General f	99.35
KOG2003	840	consensus TPR repeat-containing protein [General f	99.34
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.32
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.27
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
PRK11189	296	lipoprotein NlpI; Provisional	99.23
KOG1129	478	consensus TPR repeat-containing protein [General f	99.23
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.19
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.19
PRK11189	296	lipoprotein NlpI; Provisional	99.18
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.18
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.17
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.17
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.15
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.14
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.13
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.1
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.09
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.02
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.97
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.97
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.96
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.94
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.94
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.91
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.91
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.9
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.87
PF12854	34	PPR_1: PPR repeat	98.87
PF12854	34	PPR_1: PPR repeat	98.86
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.83
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.8
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.76
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.74
PLN02789	320	farnesyltranstransferase	98.73
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.72
PLN02789	320	farnesyltranstransferase	98.72
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.69
PRK04841	903	transcriptional regulator MalT; Provisional	98.68
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.68
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.66
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.64
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.63
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.63
PRK04841	903	transcriptional regulator MalT; Provisional	98.62
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.62
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.59
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.59
KOG1125	579	consensus TPR repeat-containing protein [General f	98.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.58
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.57
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.57
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.57
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.56
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.56
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.54
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.53
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.52
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.51
KOG1125	579	consensus TPR repeat-containing protein [General f	98.51
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.47
PRK15359	144	type III secretion system chaperone protein SscB;	98.46
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.43
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.43
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.43
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.4
PRK15359	144	type III secretion system chaperone protein SscB;	98.4
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.4
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.39
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.39
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.38
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.38
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.37
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.35
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.34
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.31
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.27
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.25
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.23
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.22
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.21
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.2
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.19
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.16
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.14
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.14
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.1
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.06
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.04
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.03
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.03
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.98
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.97
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.9
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.85
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.85
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.84
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.82
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.79
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.78
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.77
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.75
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.73
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.73
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.72
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.72
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.71
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.69
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.67
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.67
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.66
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.65
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.64
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.63
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.61
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.6
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.6
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.59
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.58
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.57
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.53
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.53
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.51
PF12688	120	TPR_5: Tetratrico peptide repeat	97.5
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.4
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.34
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.32
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.3
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.29
PF12688	120	TPR_5: Tetratrico peptide repeat	97.28
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.24
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.24
KOG0553	304	consensus TPR repeat-containing protein [General f	97.23
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.18
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.18
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.17
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.15
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.14
KOG0553	304	consensus TPR repeat-containing protein [General f	97.12
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.1
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.08
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.06
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.04
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.02
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.01
PRK10803	263	tol-pal system protein YbgF; Provisional	96.92
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.92
PRK10803	263	tol-pal system protein YbgF; Provisional	96.9
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.78
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.74
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.74
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.73
PF13371	73	TPR_9: Tetratricopeptide repeat	96.73
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.69
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.69
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.64
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.59
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.56
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.52
KOG3941	406	consensus Intermediate in Toll signal transduction	96.51
PF13371	73	TPR_9: Tetratricopeptide repeat	96.48
PRK15331	165	chaperone protein SicA; Provisional	96.42
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.36
KOG3941	406	consensus Intermediate in Toll signal transduction	96.32
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.31
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.23
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.18
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.14
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.05
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.98
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.94
PRK15331	165	chaperone protein SicA; Provisional	95.91
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.85
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.85
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.79
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.67
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.66
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.53
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.43
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.42
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.3
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.14
KOG1585	308	consensus Protein required for fusion of vesicles	95.08
PF13512	142	TPR_18: Tetratricopeptide repeat	95.05
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.04
PRK11906	458	transcriptional regulator; Provisional	95.03
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.02
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.01
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.99
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.98
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.84
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.78
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.7
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	94.7
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.58
PF13512	142	TPR_18: Tetratricopeptide repeat	94.48
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.47
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.42
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.28
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.27
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.22
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.21
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.15
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.13
COG3629	280	DnrI DNA-binding transcriptional activator of the	94.13
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.09
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.08
PRK11906	458	transcriptional regulator; Provisional	94.05
PF13428	44	TPR_14: Tetratricopeptide repeat	94.04
PF13428	44	TPR_14: Tetratricopeptide repeat	93.88
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.72
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.62
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.27
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.22
COG3118	304	Thioredoxin domain-containing protein [Posttransla	93.17
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.12
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.99
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.88
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.56
KOG1585	308	consensus Protein required for fusion of vesicles	92.45
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.32
KOG4555	175	consensus TPR repeat-containing protein [Function	92.29
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.26
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	92.2
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.09
KOG1550	552	consensus Extracellular protein SEL-1 and related	92.04
KOG4555	175	consensus TPR repeat-containing protein [Function	92.02
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.9
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	91.63
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.49
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.46
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.22
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.08
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.22
KOG1941	518	consensus Acetylcholine receptor-associated protei	89.95
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.42
PF13431	34	TPR_17: Tetratricopeptide repeat	89.34
PF13431	34	TPR_17: Tetratricopeptide repeat	88.95
PF13929	292	mRNA_stabil: mRNA stabilisation	88.87
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.82
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.58
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.26
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.09
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	88.01
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	88.01
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	87.8
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	87.65
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.92
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.55
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.49
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.47
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.16
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	86.07
PF13929	292	mRNA_stabil: mRNA stabilisation	86.07
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	85.61
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.38
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.37
COG1747	711	Uncharacterized N-terminal domain of the transcrip	83.62
COG3947	361	Response regulator containing CheY-like receiver a	83.62
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.24
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	83.14
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	83.05
KOG1258	577	consensus mRNA processing protein [RNA processing	82.83
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	82.78
COG4455	273	ImpE Protein of avirulence locus involved in tempe	82.54
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	82.16
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	82.09
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.68
PRK09687	280	putative lyase; Provisional	81.34
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.11
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.09
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	80.16

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.6e-60  Score=463.44  Aligned_cols=388  Identities=16%  Similarity=0.232  Sum_probs=358.2

Q ss_pred             hHHHHHHhhccchhhhHhhhhhccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCC
Q 015590           11 HRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPN   90 (404)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~   90 (404)
                      ...+...+.........+.++..+...+....+..+|..++.||..+|+.+|.+|++.|+++.|..+|+.|. ..|+.||
T Consensus       393 fd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~-~~Gl~pD  471 (1060)
T PLN03218        393 LEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQ-EAGLKAD  471 (1060)
T ss_pred             HHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHH-HcCCCCC
Confidence            333444443333334444555566666777778888899999999999999999999999999999999995 5789999


Q ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHH
Q 015590           91 EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVL  170 (404)
Q Consensus        91 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  170 (404)
                      ..+|+.+|.+|++.|++++|.++|++|.+.+ ..|+..++..++..|++ .|++++|.++|++|.+.|+.||..+|+.+|
T Consensus       472 ~~tynsLI~~y~k~G~vd~A~~vf~eM~~~G-v~PdvvTynaLI~gy~k-~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI  549 (1060)
T PLN03218        472 CKLYTTLISTCAKSGKVDAMFEVFHEMVNAG-VEANVHTFGALIDGCAR-AGQVAKAFGAYGIMRSKNVKPDRVVFNALI  549 (1060)
T ss_pred             HHHHHHHHHHHHhCcCHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHH-CcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            9999999999999999999999999998876 45566666667777776 999999999999999999999999999999


Q ss_pred             HHHHhcCcHhHHHHHHHHHHH--cCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          171 NLLVSAKLYGEIQGIYTSAAK--LGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~--~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      .+|++.|++++|.++|++|.+  .|+.||..+|+++|.+|++.|++++|.++|+.|.+.|++|+..+|+.+|.+|++.|+
T Consensus       550 ~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~  629 (1060)
T PLN03218        550 SACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD  629 (1060)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCC
Confidence            999999999999999999986  678999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          249 VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      +++|..+|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++
T Consensus       630 ~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~e  709 (1060)
T PLN03218        630 WDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYED  709 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          329 MICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       329 ~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      |.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|.+.|+.+.+..+++.|.+
T Consensus       710 M~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k  782 (1060)
T PLN03218        710 IKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE  782 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998865

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.5e-57  Score=443.66  Aligned_cols=390  Identities=18%  Similarity=0.234  Sum_probs=288.1

Q ss_pred             HhHhhHHHHHHhhccchhhhHhhhhhccCCCCCCCCCccchhhcc----cCCCCCHHHHHHHHhcCCChhHHHHHHHHHh
Q 015590            7 FARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLN----HKDWLSPTEVLKIFSNLRDPISVISVLNQYS   82 (404)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~   82 (404)
                      ..++|..+...++.++. .+-+.++..++.+|....+..+|+.+.    .||.++|+.+|.+|++.|++++|+.+|+.|.
T Consensus       456 A~~lf~~M~~~Gl~pD~-~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~  534 (1060)
T PLN03218        456 ALRVLRLVQEAGLKADC-KLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR  534 (1060)
T ss_pred             HHHHHHHHHHcCCCCCH-HHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            45566666666664333 555666677777777777777777776    4777788888888888888888888887774


Q ss_pred             hCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-cCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCc
Q 015590           83 KRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK-LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWP  161 (404)
Q Consensus        83 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p  161 (404)
                       ..|+.||..+|+.+|.+|++.|++++|.++|++|...+ ...|+..++..++..|++ .|++++|.++|++|.+.|++|
T Consensus       535 -~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k-~G~ldeA~elf~~M~e~gi~p  612 (1060)
T PLN03218        535 -SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACAN-AGQVDRAKEVYQMIHEYNIKG  612 (1060)
T ss_pred             -HcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHcCCCC
Confidence             45677788888888888888888888888887776532 133444455555555555 778888888888887777777


Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++++|++.|++++|.++|++|.+.|+.||..+|+++|.
T Consensus       613 ~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~  692 (1060)
T PLN03218        613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG  692 (1060)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            77788888888888888888888888888777778877888888888888888888888888877777788888888888


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          242 GLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      +|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++
T Consensus       693 ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~  772 (1060)
T PLN03218        693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV  772 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            88888888888888888877777788888888888888888888888888888777777888888888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHc----C-------------------CChHHHHHHHHHHHHCCCCCCHHhHHH
Q 015590          322 AKELVGRMICERMSPSFVSYKKLIHGLCN----Q-------------------KLVEDVDWVLKKMVQQGFVPRMGMWRE  378 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~-------------------g~~~~a~~~~~~m~~~~~~p~~~~~~~  378 (404)
                      |.+++++|.+.|+.||..+|++++..|.+    .                   +..++|..+|++|.+.|+.||..||+.
T Consensus       773 A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~  852 (1060)
T PLN03218        773 GLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQ  852 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHH
Confidence            88888888777777888778777765432    1                   123567777888887788888888888


Q ss_pred             HHHhhccCCCCcchhhHHHhh
Q 015590          379 IVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       379 ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      ++.++...+....+..+++.|
T Consensus       853 vL~cl~~~~~~~~~~~m~~~m  873 (1060)
T PLN03218        853 VLGCLQLPHDATLRNRLIENL  873 (1060)
T ss_pred             HHHHhcccccHHHHHHHHHHh
Confidence            777666666555555555443

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

Probab=100.00  E-value=5.5e-56  Score=432.98  Aligned_cols=379  Identities=15%  Similarity=0.204  Sum_probs=314.1

Q ss_pred             HHhHhhHHHHHHhhccchhhhHhhhhhccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCC
Q 015590            6 HFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRK   85 (404)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   85 (404)
                      .++++|..+...++.++ ..+.+.+...|..+|....+..+|+.++.||.++||++|.+|++.|++++|+.+|++|.+ .
T Consensus       141 ~a~~l~~~m~~~g~~~~-~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~-~  218 (697)
T PLN03081        141 CVKAVYWHVESSGFEPD-QYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWE-D  218 (697)
T ss_pred             HHHHHHHHHHHhCCCcc-hHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHH-h
Confidence            45788999999998654 477788889999999999999999999999999999999999999999999999999964 4


Q ss_pred             CCCCCH-----------------------------------HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           86 DYNPNE-----------------------------------ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        86 ~~~p~~-----------------------------------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      |+.|+.                                   .+|+.|+.+|++.|++++|.++|+.|..     ++..++
T Consensus       219 g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~~~vt~  293 (697)
T PLN03081        219 GSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE-----KTTVAW  293 (697)
T ss_pred             CCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC-----CChhHH
Confidence            555554                                   4556677778888888888888887742     233444


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      +.++..|+. .|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|++||..+|++|+++|++
T Consensus       294 n~li~~y~~-~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k  372 (697)
T PLN03081        294 NSMLAGYAL-HGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK  372 (697)
T ss_pred             HHHHHHHHh-CCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHH
Confidence            455555555 8888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      +|++++|.++|++|.    .||..+||+||.+|++.|+.++|+++|++|.+.|+.||..||++++.+|++.|+.++|.++
T Consensus       373 ~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~  448 (697)
T PLN03081        373 WGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEI  448 (697)
T ss_pred             CCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHH
Confidence            888888888888886    5788888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHhhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCC
Q 015590          291 LERMKGK-GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGF  369 (404)
Q Consensus       291 ~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  369 (404)
                      |+.|.+. |+.|+..+|++++++|++.|++++|.+++++|   ++.|+..+|++++.+|...|+++.|..+++++.  ++
T Consensus       449 f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~--~~  523 (697)
T PLN03081        449 FQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLY--GM  523 (697)
T ss_pred             HHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh--CC
Confidence            8888764 88888888888888888888888888888766   467888888888888888888888888888886  56


Q ss_pred             CCC-HHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          370 VPR-MGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       370 ~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      .|+ ..+|..|+..|...|+++++..+++.|++
T Consensus       524 ~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~  556 (697)
T PLN03081        524 GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR  556 (697)
T ss_pred             CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            665 45888888888888888888888888875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.2e-55  Score=438.38  Aligned_cols=383  Identities=13%  Similarity=0.121  Sum_probs=298.5

Q ss_pred             HHhHhhHHHHHHhhccchhhhHhhhhhccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCC
Q 015590            6 HFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRK   85 (404)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   85 (404)
                      ...++|.+++..+.. ......+.++..|.++|....+..+|++++.||.++||++|.+|++.|++++|+.+|++|.. .
T Consensus       104 ~a~~~~~~~~~~~~~-~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~-~  181 (857)
T PLN03077        104 EGSRVCSRALSSHPS-LGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLW-A  181 (857)
T ss_pred             HHHHHHHHHHHcCCC-CCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHH-c
Confidence            456788888877764 34467788889999999999999999999999999999999999999999999999999964 5


Q ss_pred             CCCCCHHHH-----------------------------------HHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           86 DYNPNEALY-----------------------------------TLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        86 ~~~p~~~~~-----------------------------------~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      |+.||..||                                   +.+|.+|++.|+++.|.++|+.|..     ++..++
T Consensus       182 g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~d~~s~  256 (857)
T PLN03077        182 GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR-----RDCISW  256 (857)
T ss_pred             CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC-----CCcchh
Confidence            777776666                                   5556666777777888888877743     233445


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      +.++..+++ .|++++|+++|++|...|+.||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|++|+.+|++
T Consensus       257 n~li~~~~~-~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k  335 (857)
T PLN03077        257 NAMISGYFE-NGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLS  335 (857)
T ss_pred             HHHHHHHHh-CCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHh
Confidence            556666666 8999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      +|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++
T Consensus       336 ~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l  411 (857)
T PLN03077        336 LGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKL  411 (857)
T ss_pred             cCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHH
Confidence            999999999999997    5788999999999999999999999999999999888888887777777766666666666


Q ss_pred             HHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC------------------------------CC------
Q 015590          291 LERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE------------------------------RM------  334 (404)
Q Consensus       291 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------------------------------~~------  334 (404)
                      ++.|.+.|+.|+..+|+.||++|++.|++++|.++|++|.+.                              ++      
T Consensus       412 ~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t  491 (857)
T PLN03077        412 HELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVT  491 (857)
T ss_pred             HHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhH
Confidence            666666666655555555555555555555555554444321                              11      


Q ss_pred             -----------------------------------------------------------CCCHHHHHHHHHHHHcCCChH
Q 015590          335 -----------------------------------------------------------SPSFVSYKKLIHGLCNQKLVE  355 (404)
Q Consensus       335 -----------------------------------------------------------~p~~~~~~~li~~~~~~g~~~  355 (404)
                                                                                 .||..+|+++|.+|++.|+.+
T Consensus       492 ~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~  571 (857)
T PLN03077        492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGS  571 (857)
T ss_pred             HHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHH
Confidence                                                                       234445556666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhh
Q 015590          356 DVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVD  400 (404)
Q Consensus       356 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~  400 (404)
                      +|.++|++|.+.|+.||..||+.++.+|.+.|..+++..+++.|.
T Consensus       572 ~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~  616 (857)
T PLN03077        572 MAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSME  616 (857)
T ss_pred             HHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHH
Confidence            666666666666666666666666666666666666666666664

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.8e-55  Score=435.41  Aligned_cols=381  Identities=13%  Similarity=0.139  Sum_probs=269.5

Q ss_pred             HHhHhhHHHHHHhhccchhhhHhhhhhccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCC
Q 015590            6 HFARNHRQSIIQSLSSASTITRKRTFALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRK   85 (404)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~   85 (404)
                      ..+++|+++++.++..+. .+.+.++..|.++|....+..+|+.++.||.++||++|.+|++.|++++|+.+|++|. ..
T Consensus       205 ~~~~~~~~~~~~g~~~~~-~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~-~~  282 (857)
T PLN03077        205 RGREVHAHVVRFGFELDV-DVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMR-EL  282 (857)
T ss_pred             hHHHHHHHHHHcCCCccc-chHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHH-Hc
Confidence            467899999999986544 6778888999999999999999999999999999999999999999999999999995 56


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHH
Q 015590           86 DYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKT  165 (404)
Q Consensus        86 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  165 (404)
                      |+.||..||+.++.+|++.|+++.|.+++..+...+ ..++..+++.++..|++ .|++++|.++|++|..    ||..+
T Consensus       283 g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g-~~~d~~~~n~Li~~y~k-~g~~~~A~~vf~~m~~----~d~~s  356 (857)
T PLN03077        283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTG-FAVDVSVCNSLIQMYLS-LGSWGEAEKVFSRMET----KDAVS  356 (857)
T ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhC-CccchHHHHHHHHHHHh-cCCHHHHHHHHhhCCC----CCeee
Confidence            788888888888888887777777777777776655 33444444444444444 5666666665555543    44555


Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH-----------------------------------hHHHHHHHHHHh
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA-----------------------------------CCLNILLKGLCE  210 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-----------------------------------~~~~~li~~~~~  210 (404)
                      |+.+|.+|++.|++++|.++|++|.+.|+.||.                                   .+|++|+++|++
T Consensus       357 ~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k  436 (857)
T PLN03077        357 WTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK  436 (857)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence            555555555555555555555555555555554                                   455555555555


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      +|++++|.++|++|.    .+|..+|+++|.+|+++|+.++|+.+|++|.. ++.||..||+.++.+|++.|+.+.+.++
T Consensus       437 ~g~~~~A~~vf~~m~----~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i  511 (857)
T PLN03077        437 CKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEI  511 (857)
T ss_pred             cCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHH
Confidence            555555555555554    34555555555555555555666666666653 3566666555444433333333333333


Q ss_pred             HHHHhhCCC------------------------------CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH
Q 015590          291 LERMKGKGC------------------------------YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS  340 (404)
Q Consensus       291 ~~~m~~~~~------------------------------~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  340 (404)
                      +..+.+.|+                              .||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..|
T Consensus       512 ~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T  591 (857)
T PLN03077        512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVT  591 (857)
T ss_pred             HHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCccc
Confidence            333322222                              45667788888888888888888888888888888888888


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHH-HCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhh
Q 015590          341 YKKLIHGLCNQKLVEDVDWVLKKMV-QQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      |+.++.+|.+.|++++|.++|+.|. +.|+.|+..+|+.++.+|.+.|+.+++..+++.|
T Consensus       592 ~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m  651 (857)
T PLN03077        592 FISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM  651 (857)
T ss_pred             HHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence            8888888888888888888888888 4588888888888888888888888888888776

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

Probab=100.00  E-value=1.2e-52  Score=409.54  Aligned_cols=337  Identities=15%  Similarity=0.235  Sum_probs=285.8

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      .+++..+|+.+|..|.+.|++++|+++|++|....++.||..+|+.++.+|++.++++.+.+++..|...+ ..++..++
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g-~~~~~~~~  161 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG-FEPDQYMM  161 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CCcchHHH
Confidence            45677789999999999999999999999987655678888899999998888888888888888888776 44555555


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCC--------------
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI--------------  196 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--------------  196 (404)
                      +.++..|++ .|++++|.++|++|.+    ||..+|+.++.+|++.|++++|.++|++|.+.|+.|              
T Consensus       162 n~Li~~y~k-~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~  236 (697)
T PLN03081        162 NRVLLMHVK-CGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAG  236 (697)
T ss_pred             HHHHHHHhc-CCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhc
Confidence            556666665 8888888888888875    788888888888888888888888888887665544              


Q ss_pred             ---------------------CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHH
Q 015590          197 ---------------------DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGL  255 (404)
Q Consensus       197 ---------------------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  255 (404)
                                           |..+|++|+++|+++|++++|.++|++|.    ++|.++||++|.+|++.|++++|+++
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~l  312 (697)
T PLN03081        237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCL  312 (697)
T ss_pred             CCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHH
Confidence                                 55566888899999999999999999997    57999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 015590          256 LERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS  335 (404)
Q Consensus       256 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  335 (404)
                      |++|.+.|+.||..||+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.|+++|++.|++++|.++|++|.    .
T Consensus       313 f~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~  388 (697)
T PLN03081        313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----R  388 (697)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----C
Confidence            999999999999999999999999999999999999999999988888888888888888888888888888885    4


Q ss_pred             CCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          336 PSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       336 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      ||..+|++||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|..+.+..+++.|.+
T Consensus       389 ~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            778888888888888888888888888888888888888888888888888888888888877753

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=2.1e-22  Score=184.88  Aligned_cols=303  Identities=17%  Similarity=0.147  Sum_probs=248.9

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCC-h-HHHHHHHHHHHhh
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS-D-GFFYNVIKIYGNM  140 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~-~~~~~~l~~~~~~  140 (404)
                      ..+...|++++|+..|.++.+..  +.+..++..+...+...|++++|..+++.+......... . ..+..+...+.. 
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~-  119 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD--PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK-  119 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH-
Confidence            35567799999999999998653  456678999999999999999999999998764311111 1 223344455554 


Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC----HhHHHHHHHHHHhcCChHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID----ACCLNILLKGLCENGNLEA  216 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~  216 (404)
                      .|++++|+.+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..++    ...+..+...+.+.|++++
T Consensus       120 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  198 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDA  198 (389)
T ss_pred             CCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHH
Confidence            899999999999998753 34677899999999999999999999999988753332    2245677888999999999


Q ss_pred             HHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          217 AFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      |...|+++.+.. +.+...+..+...|.+.|++++|.++|+++.+.+......+++.+..+|.+.|++++|...++++.+
T Consensus       199 A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  277 (389)
T PRK11788        199 ARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE  277 (389)
T ss_pred             HHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999998764 4557788889999999999999999999998764433356788999999999999999999999988


Q ss_pred             CCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---CCChHHHHHHHHHHHHCCCCCCH
Q 015590          297 KGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN---QKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       297 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      .  .|+...+..+...+.+.|++++|.++++++.+.  .|+...++.++..+..   .|+.+++..++++|.+.++.|++
T Consensus       278 ~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        278 E--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             h--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            7  467677788999999999999999999999875  6999999988887775   56899999999999998887776


Q ss_pred             H
Q 015590          374 G  374 (404)
Q Consensus       374 ~  374 (404)
                      .
T Consensus       354 ~  354 (389)
T PRK11788        354 R  354 (389)
T ss_pred             C
Confidence            5

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

Probab=99.92  E-value=1.2e-21  Score=199.10  Aligned_cols=334  Identities=13%  Similarity=0.051  Sum_probs=246.2

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+...+..+...+...|++++|+.+++.+.+.  .+.+..+|..+...+...|++++|...++.+.+..   |.+...+.
T Consensus       565 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~  639 (899)
T TIGR02917       565 QEIEPALALAQYYLGKGQLKKALAILNEAADA--APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ---PDSALALL  639 (899)
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCChHHHH
Confidence            34455666667777777777777777777543  35566777777777777777777777777776543   23333333


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG  212 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  212 (404)
                      .+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|.++++.+.+.+ +.+...+..+...+.+.|
T Consensus       640 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g  717 (899)
T TIGR02917       640 LLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQK  717 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCC
Confidence            33333333777888887777776643 2345677777777777788888888887777765 556667777777888888


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ++++|.+.|+.+.+.+  |+..++..+...+.+.|++++|...++++.+.... +...+..+...|...|++++|...|+
T Consensus       718 ~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~  794 (899)
T TIGR02917       718 DYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYR  794 (899)
T ss_pred             CHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            8888888888877663  44466777778888888888888888887766433 66777888888888888888888888


Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 015590          293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR  372 (404)
Q Consensus       293 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  372 (404)
                      ++.+.. +.+...+..+...+...|+ .+|+..++++.+.. +-+...+..+...+...|++++|..+++++.+.+.. +
T Consensus       795 ~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~  870 (899)
T TIGR02917       795 TVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-A  870 (899)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-C
Confidence            888774 3467778888888888888 77888888887652 345567777888899999999999999999976543 7


Q ss_pred             HHhHHHHHHhhccCCCCcchhhHHHhhh
Q 015590          373 MGMWREIVGCVTFGKDNRNRVYVTETVD  400 (404)
Q Consensus       373 ~~~~~~ll~~~~~~~~~~~~~~~~~~~~  400 (404)
                      ..++..+..++...|+.+.+..+++.|-
T Consensus       871 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       871 AAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7888889999999999999998888763

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

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

Probab=99.91  E-value=8.3e-21  Score=192.92  Aligned_cols=240  Identities=14%  Similarity=0.057  Sum_probs=143.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|..+++++.+.. +.+...|..+..++.+.|++++|...|+.+.+.. +.+...+..+...|.+.|++++|..+
T Consensus       580 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  657 (899)
T TIGR02917       580 KGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITS  657 (899)
T ss_pred             CCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            555555555555554432 2344556666666666666666666666665543 33455555666666666666666666


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY  300 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  300 (404)
                      |+.+.+.. +.+..++..++..+...|++++|..+++.+.+.+. .+...+..+...+...|++++|.+.|+.+...  .
T Consensus       658 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~  733 (899)
T TIGR02917       658 LKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKR--A  733 (899)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--C
Confidence            66655543 44455666666666666666666666666655542 24555666666666666677776666666655  2


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 015590          301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV  380 (404)
Q Consensus       301 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  380 (404)
                      |+..++..+..++.+.|++++|.+.++.+.+. .+.+...+..+...|...|++++|...|+++.+.. .++..++..+.
T Consensus       734 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~  811 (899)
T TIGR02917       734 PSSQNAIKLHRALLASGNTAEAVKTLEAWLKT-HPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLA  811 (899)
T ss_pred             CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            34455566666666667777777666666654 24455666666667777777777777777766542 23445555555


Q ss_pred             HhhccCCC
Q 015590          381 GCVTFGKD  388 (404)
Q Consensus       381 ~~~~~~~~  388 (404)
                      ..+...++
T Consensus       812 ~~~~~~~~  819 (899)
T TIGR02917       812 WLYLELKD  819 (899)
T ss_pred             HHHHhcCc
Confidence            55555555

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=9.5e-21  Score=173.88  Aligned_cols=294  Identities=13%  Similarity=0.086  Sum_probs=237.3

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc---HHHHHHHHHHH
Q 015590           97 IINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS---VKTFNLVLNLL  173 (404)
Q Consensus        97 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~ll~~~  173 (404)
                      ....+...|++++|...|.++....   |++...+..+..++...|++++|..+++.+...+..++   ...+..+...+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~  117 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD---PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDY  117 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHH
Confidence            3445678899999999999998764   44554555555555559999999999999887542222   24678889999


Q ss_pred             HhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc----HHHHHHHHHHHHHcCCH
Q 015590          174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN----VRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~  249 (404)
                      .+.|++++|..+|+.+.+.. +.+..++..++..|.+.|++++|.+.++.+.+.+..++    ...|..+...+.+.|++
T Consensus       118 ~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~  196 (389)
T PRK11788        118 LKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDL  196 (389)
T ss_pred             HHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCH
Confidence            99999999999999998764 56788999999999999999999999999987652222    22456778888999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ++|...|+++.+.... +...+..+...+.+.|++++|.++|+++.+.+......++..++.+|.+.|++++|.+.++++
T Consensus       197 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  275 (389)
T PRK11788        197 DAARALLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRA  275 (389)
T ss_pred             HHHHHHHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999999999876422 466788889999999999999999999997643323467889999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhcc---CCCCcchhhHHHhh
Q 015590          330 ICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTF---GKDNRNRVYVTETV  399 (404)
Q Consensus       330 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~---~~~~~~~~~~~~~~  399 (404)
                      .+.  .|+...+..+...+.+.|++++|..+++++.+  ..|+..+++.++..+..   .|+.+++..+++.+
T Consensus       276 ~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~--~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~  344 (389)
T PRK11788        276 LEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLR--RHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDL  344 (389)
T ss_pred             HHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCcCHHHHHHHHHHhhhccCCccchhHHHHHHHH
Confidence            875  57777778899999999999999999999985  47999999988886653   34666666655544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.7e-17  Score=160.28  Aligned_cols=326  Identities=9%  Similarity=-0.017  Sum_probs=173.4

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN  139 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  139 (404)
                      .++..+.+.|+++.|+.+++..+...  +-+...+..++.+....|++++|...++.+....   |.+...+..+...+.
T Consensus        47 ~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~---P~~~~a~~~la~~l~  121 (656)
T PRK15174         47 LFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN---VCQPEDVLLVASVLL  121 (656)
T ss_pred             HHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC---CCChHHHHHHHHHHH
Confidence            44555566666666666666665432  3334444455555556666666666666665443   333333333333333


Q ss_pred             hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      ..|++++|...|++..+.. +.+...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|..
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHH
Confidence            3666666666666665532 1234455556666666666666666666555443 2222222222 23555666666666


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH----HHHHHHHHh
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE----GMKLLERMK  295 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~m~  295 (404)
                      .++.+.+....++...+..+...+.+.|++++|+..|++..+.... +...+..+...+...|++++    |...|++..
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            6666554432223333344455566666666666666666554322 34555556666666666654    566666665


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHh
Q 015590          296 GKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGM  375 (404)
Q Consensus       296 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  375 (404)
                      +.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...++.+.+.  .|+...
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 QFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSK  353 (656)
T ss_pred             hhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchH
Confidence            542 1134455666666666666666666666665532 223344555556666666666666666666532  333322


Q ss_pred             HH-HHHHhhccCCCCcchhhHHHh
Q 015590          376 WR-EIVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       376 ~~-~ll~~~~~~~~~~~~~~~~~~  398 (404)
                      +. .+..++...|+.+++...++.
T Consensus       354 ~~~~~a~al~~~G~~deA~~~l~~  377 (656)
T PRK15174        354 WNRYAAAALLQAGKTSEAESVFEH  377 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHH
Confidence            22 223344555555555555444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=3.4e-17  Score=158.14  Aligned_cols=319  Identities=10%  Similarity=0.019  Sum_probs=247.6

Q ss_pred             CCCCCCCccchhhc---ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHH
Q 015590           37 SASHQDSDHHAYKL---NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDI  113 (404)
Q Consensus        37 ~~~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  113 (404)
                      .|....+..+...+   .+.+...+..+..+....|+++.|+..|+++.+..  +.+...+..+...+...|++++|...
T Consensus        55 ~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~--P~~~~a~~~la~~l~~~g~~~~Ai~~  132 (656)
T PRK15174         55 KDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN--VCQPEDVLLVASVLLKSKQYATVADL  132 (656)
T ss_pred             cCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            45555555554433   22234455566677778999999999999998754  55677888899999999999999999


Q ss_pred             HHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC
Q 015590          114 MQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  193 (404)
                      ++.+....   |.+...+..+...+...|++++|...++.+..... .+...+..+ ..+...|++++|...++.+.+..
T Consensus       133 l~~Al~l~---P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~  207 (656)
T PRK15174        133 AEQAWLAF---SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFF  207 (656)
T ss_pred             HHHHHHhC---CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcC
Confidence            99987654   44444454444445559999999999998866542 223334333 34788999999999999988765


Q ss_pred             CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHH----HHHHHHHHHHCCCCCCHH
Q 015590          194 VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEE----AFGLLERMESEGIDADTV  269 (404)
Q Consensus       194 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~----A~~~~~~m~~~~~~p~~~  269 (404)
                      ..++......+...+.+.|++++|...++...+.. +.+...+..+...|.+.|++++    |...|++..+.... +..
T Consensus       208 ~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~  285 (656)
T PRK15174        208 ALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVR  285 (656)
T ss_pred             CCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHH
Confidence            33445555666788999999999999999998876 5677888899999999999986    89999999877433 667


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV-SYKKLIHGL  348 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~-~~~~li~~~  348 (404)
                      .+..+...+...|++++|...+++...... -+...+..+..++.+.|++++|.+.++.+.+.  .|+.. .+..+..++
T Consensus       286 a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al  362 (656)
T PRK15174        286 IVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAAL  362 (656)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            889999999999999999999999998742 24567778889999999999999999999875  45543 344456788


Q ss_pred             HcCCChHHHHHHHHHHHHC
Q 015590          349 CNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       349 ~~~g~~~~a~~~~~~m~~~  367 (404)
                      ...|+.++|...|++..+.
T Consensus       363 ~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        363 LQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHh
Confidence            9999999999999998865

>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=4.9e-16  Score=150.39  Aligned_cols=255  Identities=15%  Similarity=-0.017  Sum_probs=190.2

Q ss_pred             CCHHHHHHHHhhcccCC-CCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          142 GRISKAIETLFDMPSYN-CWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      +++++|.+.|++..+.+ ..| +...|+.+...+...|++++|+..++...+.. +.+...|..+...+...|++++|..
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            56777778887776643 223 34567777788888899999999999888764 3446678888888889999999999


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC  299 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  299 (404)
                      .|+...+.. +.+...|..+...+...|++++|...|++..+.... +...+..+...+.+.|++++|+..|++..+.. 
T Consensus       387 ~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~-~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       387 DFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD-FIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCcc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            998887765 556788888888899999999999999988876433 56677778888889999999999999888762 


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH
Q 015590          300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSF------VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      +-+...++.+...+...|++++|++.|++..+.....+.      ..++..+..+...|++++|.+++++..+.  .|+.
T Consensus       464 P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~  541 (615)
T TIGR00990       464 PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALII--DPEC  541 (615)
T ss_pred             CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--CCCc
Confidence            224678888888899999999999999998765211111      11222223344468999999999988754  3544


Q ss_pred             -HhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          374 -GMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       374 -~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                       ..+..+...+...|+.+.+...++...++
T Consensus       542 ~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       542 DIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence             35777778888889988888877766544

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

Probab=99.79  E-value=3.3e-15  Score=144.67  Aligned_cols=297  Identities=13%  Similarity=0.037  Sum_probs=231.0

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh-HHHHHHHHHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD-GFFYNVIKIYG  138 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~  138 (404)
                      ..-..+.+.|++++|+..|++.++   ..|+...|..+..+|.+.|++++|.+.++...+..   |+. ..+...-..+.
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~---~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~---p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIE---CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD---PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHH
Confidence            455678888999999999999975   36788899999999999999999999999987654   333 34445555555


Q ss_pred             hhcCCHHHHHHHHhhcccCC-C---------------------------Cc-cHHHHHHHHH------------------
Q 015590          139 NMAGRISKAIETLFDMPSYN-C---------------------------WP-SVKTFNLVLN------------------  171 (404)
Q Consensus       139 ~~~g~~~~A~~~~~~m~~~~-~---------------------------~p-~~~~~~~ll~------------------  171 (404)
                      . .|++++|+.-|......+ .                           .| +...+..+..                  
T Consensus       206 ~-lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       206 G-LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             H-cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccc
Confidence            5 999999987664332111 0                           00 0000000000                  


Q ss_pred             ------------HH------HhcCcHhHHHHHHHHHHHcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC
Q 015590          172 ------------LL------VSAKLYGEIQGIYTSAAKLG--VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP  231 (404)
Q Consensus       172 ------------~~------~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  231 (404)
                                  ..      ...+++++|.+.|+...+.+  .+.....+..+...+...|++++|...|+...+.. +.
T Consensus       285 ~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~  363 (615)
T TIGR00990       285 ELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PR  363 (615)
T ss_pred             ccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CC
Confidence                        00      11257889999999998765  23355678888899999999999999999998764 44


Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 015590          232 NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLY  311 (404)
Q Consensus       232 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  311 (404)
                      +..+|..+...+...|++++|...|++..+.... +...|..+...+...|++++|...|++..+.. +.+...+..+..
T Consensus       364 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~  441 (615)
T TIGR00990       364 VTQSYIKRASMNLELGDPDKAEEDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGV  441 (615)
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHH
Confidence            5678899999999999999999999999876433 57788999999999999999999999999874 225677788888


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          312 GLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       312 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      .+.+.|++++|+..+++..+. .+.+...|+.+..++...|++++|.+.|++..+.
T Consensus       442 ~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       442 TQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            999999999999999999875 3445788899999999999999999999998854

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.79  E-value=2e-15  Score=155.56  Aligned_cols=335  Identities=9%  Similarity=0.039  Sum_probs=177.1

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHH------------HHHHHHHhcCCchHHHHHHHHHHhcc
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYT------------LIINKLAQAKRFDAIEDIMQRIKVEK  121 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~------------~li~~~~~~~~~~~a~~~~~~~~~~~  121 (404)
                      +...+..+-..+.+.|++++|+..|++.++..+-.+....|.            .....+.+.|++++|+..|+++....
T Consensus       302 ~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~  381 (1157)
T PRK11447        302 DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD  381 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            444555566666666666666666666654322111111111            11234455666666666666655443


Q ss_pred             cCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHH-------------------------------
Q 015590          122 LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLV-------------------------------  169 (404)
Q Consensus       122 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l-------------------------------  169 (404)
                         |.+...+..+...+...|++++|++.|++..+..  |+ ...+..+                               
T Consensus       382 ---P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~  456 (1157)
T PRK11447        382 ---NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIE  456 (1157)
T ss_pred             ---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHH
Confidence               2232233323333333667777777776665532  22 2222222                               


Q ss_pred             -----------HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHH
Q 015590          170 -----------LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYST  238 (404)
Q Consensus       170 -----------l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  238 (404)
                                 ...+...|++++|++.|++..+.. +-+...+..+...|.+.|++++|...++++.+.. +.+...+..
T Consensus       457 ~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a  534 (1157)
T PRK11447        457 RSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYA  534 (1157)
T ss_pred             HHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence                       222334566666666666666553 3345555666666677777777777766665432 223333322


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC---------------------------------------CCCCCHHHHHHHHHHHH
Q 015590          239 LMHGLCEKGNVEEAFGLLERMESE---------------------------------------GIDADTVTFNILISGLR  279 (404)
Q Consensus       239 li~~~~~~~~~~~A~~~~~~m~~~---------------------------------------~~~p~~~~~~~li~~~~  279 (404)
                      +...+.+.++.++|+..++.+...                                       ..+.+...+..+...+.
T Consensus       535 ~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~~p~~~~~~~~La~~~~  614 (1157)
T PRK11447        535 YGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQQPPSTRIDLTLADWAQ  614 (1157)
T ss_pred             HHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            222333334444443333322110                                       01223334455666667


Q ss_pred             cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHH
Q 015590          280 KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDW  359 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  359 (404)
                      +.|+.++|+..|++..+.. +.+...+..+...+...|++++|++.++...+.. +.+...+..+..++...|++++|.+
T Consensus       615 ~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~  692 (1157)
T PRK11447        615 QRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQR  692 (1157)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHH
Confidence            7777777777777777653 2245667777777777777777777777665431 2234455556667777777777777


Q ss_pred             HHHHHHHCCC--CC---CHHhHHHHHHhhccCCCCcchhhHHH
Q 015590          360 VLKKMVQQGF--VP---RMGMWREIVGCVTFGKDNRNRVYVTE  397 (404)
Q Consensus       360 ~~~~m~~~~~--~p---~~~~~~~ll~~~~~~~~~~~~~~~~~  397 (404)
                      +++++....-  .|   +...+..+-..+...|+++.+...++
T Consensus       693 ~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~  735 (1157)
T PRK11447        693 TFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYK  735 (1157)
T ss_pred             HHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7777765421  11   11234444455556666666655544

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.77  E-value=9.8e-15  Score=150.55  Aligned_cols=330  Identities=10%  Similarity=-0.000  Sum_probs=230.1

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH---------HHH
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF---------FYN  132 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---------~~~  132 (404)
                      -..+...|++++|+..|++.++..  +.+...+..+..++.+.|++++|+..|++..+.....+....         ++.
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            346677899999999999998753  457889999999999999999999999998765421111111         111


Q ss_pred             H---HHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHH-----
Q 015590          133 V---IKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNIL-----  204 (404)
Q Consensus       133 ~---l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l-----  204 (404)
                      .   -..+. ..|++++|+..|++..+.. +.+...+..+...+...|++++|++.|+++.+.. +.+...+..+     
T Consensus       354 ~~~~g~~~~-~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~  430 (1157)
T PRK11447        354 LIQQGDAAL-KANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR  430 (1157)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            1   12233 4899999999999998865 2355678888999999999999999999998764 3333333322     


Q ss_pred             -------------------------------------HHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC
Q 015590          205 -------------------------------------LKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG  247 (404)
Q Consensus       205 -------------------------------------i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  247 (404)
                                                           ...+...|++++|.+.|++..+.. +-+...+..+...|.+.|
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence                                                 234456788888888888887764 445667777888888888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC------------------------------
Q 015590          248 NVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK------------------------------  297 (404)
Q Consensus       248 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------------------------------  297 (404)
                      ++++|...|+++.+.... +...+..+...+...|+.++|...++.+...                              
T Consensus       510 ~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~  588 (1157)
T PRK11447        510 QRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGK  588 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCC
Confidence            888888888888765322 2222222222333344444444433322110                              


Q ss_pred             ---------CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCC
Q 015590          298 ---------GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQG  368 (404)
Q Consensus       298 ---------~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  368 (404)
                               ..+.+...+..+...+.+.|+.++|++.|++..+.. +.+...+..+...+...|++++|.+.++...+  
T Consensus       589 ~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~--  665 (1157)
T PRK11447        589 EAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPA--  665 (1157)
T ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc--
Confidence                     012344566677778888899999999999888753 44677888888999999999999999998774  


Q ss_pred             CCCC-HHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          369 FVPR-MGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       369 ~~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      ..|+ ...+..+-.++...|+.+++..+++.+.+
T Consensus       666 ~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~  699 (1157)
T PRK11447        666 TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP  699 (1157)
T ss_pred             cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence            4444 33455556677778888888877777644

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

Probab=99.76  E-value=7.9e-16  Score=137.54  Aligned_cols=325  Identities=14%  Similarity=0.108  Sum_probs=189.2

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccC-----------
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLC-----------  123 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-----------  123 (404)
                      ..+|..+-..+-..|+.++|+..|+.+++..  +.....|..+..++...|+.+.|.+.|....+....           
T Consensus       116 ae~ysn~aN~~kerg~~~~al~~y~~aiel~--p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnL  193 (966)
T KOG4626|consen  116 AEAYSNLANILKERGQLQDALALYRAAIELK--PKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNL  193 (966)
T ss_pred             HHHHHHHHHHHHHhchHHHHHHHHHHHHhcC--chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHH
Confidence            3467778888888889999999999887653  334667777777777777777777777665443200           


Q ss_pred             --------------------CCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHH
Q 015590          124 --------------------RFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEI  182 (404)
Q Consensus       124 --------------------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a  182 (404)
                                          .|.-.+.|+-+.......|+...|++.|++....+  |+ ...|-.|...|...+.+++|
T Consensus       194 lka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  194 LKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcchHH
Confidence                                01111122222222233788888888888877744  55 34777777777777777777


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          183 QGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       183 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|....... +....++..+...|...|.+|.|...+++..+.. +.=...|+.|..++-..|++.+|.+.|.+....
T Consensus       272 vs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l  349 (966)
T KOG4626|consen  272 VSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRL  349 (966)
T ss_pred             HHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHh
Confidence            77776665443 3334444444444455555555555555444432 222344555555555555555555555444432


Q ss_pred             CC--------------------------------CCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh-hhHHH
Q 015590          263 GI--------------------------------DAD-TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS-ASYQE  308 (404)
Q Consensus       263 ~~--------------------------------~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~  308 (404)
                      ..                                .|. ...++.|...|-+.|+.++|...|++..+-  .|+- ..|+.
T Consensus       350 ~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~N  427 (966)
T KOG4626|consen  350 CPNHADAMNNLGNIYREQGKIEEATRLYLKALEVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSN  427 (966)
T ss_pred             CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHh
Confidence            11                                111 233455666666666666666666666554  4442 45666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-hHHHHHHhhccC
Q 015590          309 VLYGLLDKKRFPEAKELVGRMICERMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MWREIVGCVTFG  386 (404)
Q Consensus       309 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~  386 (404)
                      +-..|-..|+++.|.+.+.+.+..  .|.. ..++.|...|...|++.+|++-+++..  .++||.. .|--++.+.---
T Consensus       428 mGnt~ke~g~v~~A~q~y~rAI~~--nPt~AeAhsNLasi~kDsGni~~AI~sY~~aL--klkPDfpdA~cNllh~lq~v  503 (966)
T KOG4626|consen  428 MGNTYKEMGDVSAAIQCYTRAIQI--NPTFAEAHSNLASIYKDSGNIPEAIQSYRTAL--KLKPDFPDAYCNLLHCLQIV  503 (966)
T ss_pred             cchHHHHhhhHHHHHHHHHHHHhc--CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHH--ccCCCCchhhhHHHHHHHHH
Confidence            666666666666666666666542  3433 456677777777888888888887777  4556543 344444444333


Q ss_pred             CCCcc
Q 015590          387 KDNRN  391 (404)
Q Consensus       387 ~~~~~  391 (404)
                      .+|.+
T Consensus       504 cdw~D  508 (966)
T KOG4626|consen  504 CDWTD  508 (966)
T ss_pred             hcccc
Confidence            34433

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.75  E-value=3.4e-14  Score=140.29  Aligned_cols=332  Identities=12%  Similarity=0.031  Sum_probs=205.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHH
Q 015590           58 PTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIY  137 (404)
Q Consensus        58 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  137 (404)
                      +..+...+.+.|++++|+.+|++.++..  +.+...+..+...+...|++++|...++.+....   |.+.. +..+...
T Consensus        52 ~~~lA~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~---P~~~~-~~~la~~  125 (765)
T PRK10049         52 YAAVAVAYRNLKQWQNSLTLWQKALSLE--PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA---PDKAN-LLALAYV  125 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHH-HHHHHHH
Confidence            4455555555555555555555554432  3334444455555555555555555555554432   22222 3333333


Q ss_pred             HhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcH-------------------------------------
Q 015590          138 GNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLY-------------------------------------  179 (404)
Q Consensus       138 ~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~-------------------------------------  179 (404)
                      +...|+.++|+..++++.+..  |+ ...+..+...+...+..                                     
T Consensus       126 l~~~g~~~~Al~~l~~al~~~--P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~  203 (765)
T PRK10049        126 YKRAGRHWDELRAMTQALPRA--PQTQQYPTEYVQALRNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTR  203 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhccccc
Confidence            333555555555555555433  22 22333333333333333                                     


Q ss_pred             ---------hHHHHHHHHHHHc-CCCCCHh-HH----HHHHHHHHhcCChHHHHHHHHHchhCCCC-CcHHHHHHHHHHH
Q 015590          180 ---------GEIQGIYTSAAKL-GVEIDAC-CL----NILLKGLCENGNLEAAFYVLDEFPKQNCE-PNVRTYSTLMHGL  243 (404)
Q Consensus       180 ---------~~a~~~~~~~~~~-g~~~~~~-~~----~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~  243 (404)
                               ++|++.++.+.+. ...|+.. .+    ...+..+...|++++|...|+.+.+.+.+ |+. .-..+...|
T Consensus       204 ~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~y  282 (765)
T PRK10049        204 SEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAY  282 (765)
T ss_pred             ChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHH
Confidence                     4455555555543 1122221 11    11133456779999999999999887522 221 222257789


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC-----------CCCh---hhH
Q 015590          244 CEKGNVEEAFGLLERMESEGIDA---DTVTFNILISGLRKQGKVEEGMKLLERMKGKGC-----------YPNS---ASY  306 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----------~p~~---~~~  306 (404)
                      ...|++++|+..|+++.+.....   .......+..++...|++++|.++++.+.....           .|+.   ..+
T Consensus       283 l~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~  362 (765)
T PRK10049        283 LKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQ  362 (765)
T ss_pred             HhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHH
Confidence            99999999999999987653221   124466677788999999999999999887621           1231   244


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH-HhHHHHHHhhcc
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM-GMWREIVGCVTF  385 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~  385 (404)
                      ..+...+...|+.++|++.++++... .+.+...+..+...+...|++++|++.+++..+  +.|+. ..+......+..
T Consensus       363 ~~~a~~l~~~g~~~eA~~~l~~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~a~~al~  439 (765)
T PRK10049        363 SLLSQVAKYSNDLPQAEMRARELAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQAWTALD  439 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHHHHHHHH
Confidence            56777888999999999999999876 355678888899999999999999999999984  55764 445555556777


Q ss_pred             CCCCcchhhHHHhhhh
Q 015590          386 GKDNRNRVYVTETVDS  401 (404)
Q Consensus       386 ~~~~~~~~~~~~~~~~  401 (404)
                      .++++.+..+.+.+.+
T Consensus       440 ~~~~~~A~~~~~~ll~  455 (765)
T PRK10049        440 LQEWRQMDVLTDDVVA  455 (765)
T ss_pred             hCCHHHHHHHHHHHHH
Confidence            8888888888776643

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

Probab=99.74  E-value=1.4e-15  Score=136.05  Aligned_cols=294  Identities=14%  Similarity=0.068  Sum_probs=186.9

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhh
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNM  140 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~  140 (404)
                      -.++.+..+.+....--....+.  .+.-.++|+.+...+-..|++++|..+++.+.+.+   |... .+.++..++.. 
T Consensus        89 ~ai~~q~~r~d~s~a~~~~a~r~--~~q~ae~ysn~aN~~kerg~~~~al~~y~~aiel~---p~fida~inla~al~~-  162 (966)
T KOG4626|consen   89 SAIFFQGSRLDKSSAGSLLAIRK--NPQGAEAYSNLANILKERGQLQDALALYRAAIELK---PKFIDAYINLAAALVT-  162 (966)
T ss_pred             hhhhhcccchhhhhhhhhhhhhc--cchHHHHHHHHHHHHHHhchHHHHHHHHHHHHhcC---chhhHHHhhHHHHHHh-
Confidence            35677777777666555555443  35668899999999999999999999999998765   3333 33334444444 


Q ss_pred             cCCHHHHHHHHhhcccCCCCccHH-----------------------------------HHHHHHHHHHhcCcHhHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVK-----------------------------------TFNLVLNLLVSAKLYGEIQGI  185 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~-----------------------------------~~~~ll~~~~~~~~~~~a~~~  185 (404)
                      .|+.+.|.+.|.+..+.+  |+..                                   .|..|...+-..|+...|++.
T Consensus       163 ~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~  240 (966)
T KOG4626|consen  163 QGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQH  240 (966)
T ss_pred             cCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHH
Confidence            677777777766655533  4332                                   334444444455555566666


Q ss_pred             HHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 015590          186 YTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID  265 (404)
Q Consensus       186 ~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~  265 (404)
                      |++..+.. +.-...|-.|.+.|...+.++.|...+....... +...+.+..+.-.|...|+.+-|++.|++..+.  .
T Consensus       241 y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~  316 (966)
T KOG4626|consen  241 YEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--Q  316 (966)
T ss_pred             HHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhc--C
Confidence            66555543 2224456666666666666666666666554442 334556666666677777777777777777665  3


Q ss_pred             CC-HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHH
Q 015590          266 AD-TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSF-VSYKK  343 (404)
Q Consensus       266 p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~  343 (404)
                      |+ ...|+.|..++-..|++.+|.+.|....... .-.....+.|...+...|.+++|..+|....+  +.|.. ..++.
T Consensus       317 P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nN  393 (966)
T KOG4626|consen  317 PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNN  393 (966)
T ss_pred             CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhh
Confidence            33 4577888888888888888888888777652 11345566666677777777777777766655  33433 35566


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 015590          344 LIHGLCNQKLVEDVDWVLKKMVQQGFVPR  372 (404)
Q Consensus       344 li~~~~~~g~~~~a~~~~~~m~~~~~~p~  372 (404)
                      |...|-.+|++++|..-+++.+  .+.|+
T Consensus       394 La~i~kqqgnl~~Ai~~Ykeal--rI~P~  420 (966)
T KOG4626|consen  394 LASIYKQQGNLDDAIMCYKEAL--RIKPT  420 (966)
T ss_pred             HHHHHHhcccHHHHHHHHHHHH--hcCch
Confidence            6666666677777766666665  45554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.72  E-value=3.8e-13  Score=131.01  Aligned_cols=192  Identities=11%  Similarity=0.070  Sum_probs=109.0

Q ss_pred             HHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHH
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG-----IDADTVTFNILISGLR  279 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~-----~~p~~~~~~~li~~~~  279 (404)
                      +-++...|++.++.+.|+.+...|.+....+--++.++|...+++++|+.+|+.+....     ..++......|.-+|.
T Consensus       299 l~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l  378 (822)
T PRK14574        299 LGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN  378 (822)
T ss_pred             HHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH
Confidence            33445556666666666666665544344455666666777777777777776664432     1122233455666666


Q ss_pred             cCCCHHHHHHHHHHHhhCCC-----------CCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          280 KQGKVEEGMKLLERMKGKGC-----------YPNS---ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLI  345 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~~~-----------~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li  345 (404)
                      ..+++++|..+++++.+...           .||+   ..+..++..+...|+..+|++.++++... -+-|......+.
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~-aP~n~~l~~~~A  457 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST-APANQNLRIALA  457 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHH
Confidence            67777777777776665311           1111   12233455566667777777777776554 244666666666


Q ss_pred             HHHHcCCChHHHHHHHHHHHHCCCCCCHH-hHHHHHHhhccCCCCcchhhHHHhh
Q 015590          346 HGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       346 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      +.+...|.+.+|++.++...  .+.|+.. +......++..-++++.+..+.+.+
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~--~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l  510 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVE--SLAPRSLILERAQAETAMALQEWHQMELLTDDV  510 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHh--hhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            77777777777777775555  3345432 3334444555556666665555433

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

Probab=99.71  E-value=8.8e-14  Score=115.26  Aligned_cols=291  Identities=14%  Similarity=0.125  Sum_probs=227.5

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCC--hHHHHHHHHHHHhhcCCHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS--DGFFYNVIKIYGNMAGRIS  145 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  145 (404)
                      ++++++|.+.|-+|.+.+  +.+.++..+|.+.|.+.|..|+|+++++.+..+......  ......+-..|.. .|-+|
T Consensus        48 s~Q~dKAvdlF~e~l~~d--~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~-aGl~D  124 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED--PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMA-AGLLD  124 (389)
T ss_pred             hcCcchHHHHHHHHHhcC--chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHH-hhhhh
Confidence            368999999999998643  556677788999999999999999999998765411111  1234456677777 99999


Q ss_pred             HHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC----HhHHHHHHHHHHhcCChHHHHHHH
Q 015590          146 KAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID----ACCLNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~  221 (404)
                      .|.++|..+.+.|. --......|+..|-...+|++|+++-+++.+.+-.+.    ...|.-|...+....+++.|..++
T Consensus       125 RAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l  203 (389)
T COG2956         125 RAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELL  203 (389)
T ss_pred             HHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence            99999999998652 3345778899999999999999999999998875544    235677777778889999999999


Q ss_pred             HHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC
Q 015590          222 DEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP  301 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  301 (404)
                      ....+.+ +..+..--.+.+.+...|++++|.+.++...+.+..--..+...|..+|.+.|+.++....+.++.+..  +
T Consensus       204 ~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~  280 (389)
T COG2956         204 KKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--T  280 (389)
T ss_pred             HHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--C
Confidence            9988775 555566666778899999999999999999998665556778899999999999999999999999883  3


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---CCChHHHHHHHHHHHHC
Q 015590          302 NSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN---QKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       302 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~  367 (404)
                      ....-..+-.......-.+.|..++.+-...  +|+...+..+|+.-..   .|...+-..+++.|+..
T Consensus       281 g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         281 GADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             CccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            3344444444444555567777776666554  7999999999987654   45577778888888765

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.71  E-value=4.3e-13  Score=132.58  Aligned_cols=331  Identities=13%  Similarity=0.116  Sum_probs=236.6

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHH
Q 015590           59 TEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIY  137 (404)
Q Consensus        59 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~  137 (404)
                      ...+.+....|+.++|+.++..+....  +.+...+..+..++.+.|++++|.++++......   |.+. ....+...+
T Consensus        19 ~d~~~ia~~~g~~~~A~~~~~~~~~~~--~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~la~~l   93 (765)
T PRK10049         19 ADWLQIALWAGQDAEVITVYNRYRVHM--QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE---PQNDDYQRGLILTL   93 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHH
Confidence            345667888999999999999996422  5566679999999999999999999999987654   3333 344444445


Q ss_pred             HhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHH
Q 015590          138 GNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       138 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a  217 (404)
                      .. .|++++|+..+++..+.. +.+.. +..+...+...|+.++|+..++++.+.. |.+...+..+..++...|..+.|
T Consensus        94 ~~-~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~A  169 (765)
T PRK10049         94 AD-AGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPA  169 (765)
T ss_pred             HH-CCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHH
Confidence            54 999999999999998764 23455 8888889999999999999999999875 44566666677777777776665


Q ss_pred             HHHHHH----------------------------------------------chhC-CCCCcHH-HHH----HHHHHHHH
Q 015590          218 FYVLDE----------------------------------------------FPKQ-NCEPNVR-TYS----TLMHGLCE  245 (404)
Q Consensus       218 ~~~~~~----------------------------------------------~~~~-~~~~~~~-~~~----~li~~~~~  245 (404)
                      .+.++.                                              +.+. .-.|+.. .+.    ..+.++..
T Consensus       170 l~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~  249 (765)
T PRK10049        170 LGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLA  249 (765)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHH
Confidence            555543                                              2211 0011111 111    11334567


Q ss_pred             cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC---ChhhHHHHHHHHHhcCChhH
Q 015590          246 KGNVEEAFGLLERMESEGID-ADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP---NSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~  321 (404)
                      .|++++|+..|+.+.+.+.. |+. .-..+...|...|++++|+..|+++.......   .......+..++...|++++
T Consensus       250 ~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~e  328 (765)
T PRK10049        250 RDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPG  328 (765)
T ss_pred             hhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHH
Confidence            78999999999999887532 332 22225678889999999999999987653111   12456667778889999999


Q ss_pred             HHHHHHHHHHCCC-----------CCC---HHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHhHHHHHHhhccC
Q 015590          322 AKELVGRMICERM-----------SPS---FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR-MGMWREIVGCVTFG  386 (404)
Q Consensus       322 a~~~~~~~~~~~~-----------~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~  386 (404)
                      |.+.++.+.+...           .|+   ...+..+...+...|+.++|+++++++...  .|+ ...+..+...+...
T Consensus       329 A~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~  406 (765)
T PRK10049        329 ALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASVLQAR  406 (765)
T ss_pred             HHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhc
Confidence            9999999886521           123   234556677888999999999999998854  343 45666677777788


Q ss_pred             CCCcchhhHHHhhhh
Q 015590          387 KDNRNRVYVTETVDS  401 (404)
Q Consensus       387 ~~~~~~~~~~~~~~~  401 (404)
                      |+.+.+...++...+
T Consensus       407 g~~~~A~~~l~~al~  421 (765)
T PRK10049        407 GWPRAAENELKKAEV  421 (765)
T ss_pred             CCHHHHHHHHHHHHh
Confidence            888888888776544

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

Probab=99.68  E-value=4.3e-16  Score=135.93  Aligned_cols=262  Identities=13%  Similarity=0.114  Sum_probs=101.5

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS  175 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~  175 (404)
                      .+...+.+.|++++|.++++...... .++++..+|.++...+...++++.|.+.++++...+. -++..+..++.. ..
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~-~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~   89 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKI-APPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQ   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccc-cccccccccccc-cc
Confidence            45677778888888888885432221 1355667777777666667888888888888877552 244566666666 67


Q ss_pred             cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC-CCCcHHHHHHHHHHHHHcCCHHHHHH
Q 015590          176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN-CEPNVRTYSTLMHGLCEKGNVEEAFG  254 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~  254 (404)
                      .+++++|.+++....+.  .++...+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|+.
T Consensus        90 ~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             ccccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            88888888888776554  3456667778888888888888888888866432 34567778888888888888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 015590          255 LLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERM  334 (404)
Q Consensus       255 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  334 (404)
                      .+++..+..+. |....+.++..+...|+.+++.++++...+.. +.|+..+..+..++...|+.++|+..+++..+. .
T Consensus       168 ~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~-~  244 (280)
T PF13429_consen  168 DYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKL-N  244 (280)
T ss_dssp             HHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH-S
T ss_pred             HHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccccccccc-c
Confidence            88888776332 46677778888888888888888887776653 335567778888888888888888888888765 2


Q ss_pred             CCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          335 SPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       335 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      +.|+.....+.+++...|+.++|.++..+..
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             TT-HHHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            4477777788888888888888888877654

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.67  E-value=9.3e-13  Score=120.29  Aligned_cols=284  Identities=12%  Similarity=0.021  Sum_probs=200.1

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCHHHHHHH-HHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH-HHHHHHhhcCCHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNEALYTLI-INKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN-VIKIYGNMAGRIS  145 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~  145 (404)
                      .|+++.|.+......+.   .+++..+..+ ..+..+.|+++.|.+.+..+.+..   +++..... .........|+++
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 EGDYQQVEKLMTRNADH---AEQPVVNYLLAAEAAQQRGDEARANQHLERAAELA---DNDQLPVEITRVRIQLARNENH  170 (398)
T ss_pred             CCCHHHHHHHHHHHHhc---ccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CcchHHHHHHHHHHHHHCCCHH
Confidence            48888888777766432   2223333333 444478888999999998886543   33332222 2233444488999


Q ss_pred             HHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH-------hHHHHHHHHHHhcCChHHHH
Q 015590          146 KAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA-------CCLNILLKGLCENGNLEAAF  218 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-------~~~~~li~~~~~~g~~~~a~  218 (404)
                      .|.+.++++.+.+ +-++.....+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...
T Consensus       171 ~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~  249 (398)
T PRK10747        171 AARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLK  249 (398)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            9999998888765 234567788888888889999999999988887644222       13334444445556667777


Q ss_pred             HHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          219 YVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      ++++.+.+.- +.+......+...+...|+.++|..++++..+.  .||...  .++.+....++.+++.+..+...+..
T Consensus       250 ~~w~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~  324 (398)
T PRK10747        250 RWWKNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH  324 (398)
T ss_pred             HHHHhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC
Confidence            7777776542 557778888888888999999999998888774  344421  23444445688888888888888773


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          299 CYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       299 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                       +-|...+.++...+.+.+++++|.+.|+...+.  .|+...+..+..++.+.|+.++|.+++++-..
T Consensus       325 -P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        325 -GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence             224556778888888889999999999988874  68888888888889999999999888887653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.67  E-value=3.6e-13  Score=115.71  Aligned_cols=324  Identities=12%  Similarity=0.114  Sum_probs=161.0

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHH--hcCCchHH-HHHHHHHHhcc----------
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLA--QAKRFDAI-EDIMQRIKVEK----------  121 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~--~~~~~~~a-~~~~~~~~~~~----------  121 (404)
                      +.+=|.++...+ .|...++.-+|+.| +..|++.+...-..|+...+  ...++--| ++.|-.|...+          
T Consensus       116 V~~E~nL~kmIS-~~EvKDs~ilY~~m-~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G  193 (625)
T KOG4422|consen  116 VETENNLLKMIS-SREVKDSCILYERM-RSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSG  193 (625)
T ss_pred             hcchhHHHHHHh-hcccchhHHHHHHH-HhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccccccccccccc
Confidence            445566666544 57888899999999 56677777777666655433  33332222 12222222111          


Q ss_pred             --------cCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC
Q 015590          122 --------LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       122 --------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  193 (404)
                              ..+.++.++..++.++|+ --..+.|.+++++-.....+.+..+||.+|.+-.-    ....++..+|....
T Consensus       194 ~vAdL~~E~~PKT~et~s~mI~Gl~K-~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqk  268 (625)
T KOG4422|consen  194 AVADLLFETLPKTDETVSIMIAGLCK-FSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQK  268 (625)
T ss_pred             cHHHHHHhhcCCCchhHHHHHHHHHH-HHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhh
Confidence                    012233444445555554 45555555555555554444555555555543221    12244555555555


Q ss_pred             CCCCHhHHHHHHHHHHhcCChHHH----HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHH-HHHHHHHHHH----CCC
Q 015590          194 VEIDACCLNILLKGLCENGNLEAA----FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEE-AFGLLERMES----EGI  264 (404)
Q Consensus       194 ~~~~~~~~~~li~~~~~~g~~~~a----~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~m~~----~~~  264 (404)
                      +.||..|+|+++.+..+.|+++.|    .+++.+|.+.|+.|...+|..+|..+.+.++..+ |..++.++..    +.+
T Consensus       269 m~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~f  348 (625)
T KOG4422|consen  269 MTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTF  348 (625)
T ss_pred             cCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcc
Confidence            555555555555555555554433    3344455555555555555555555555555432 3333333322    112


Q ss_pred             CC----CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC----CCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 015590          265 DA----DTVTFNILISGLRKQGKVEEGMKLLERMKGKG----CYPNS---ASYQEVLYGLLDKKRFPEAKELVGRMICER  333 (404)
Q Consensus       265 ~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  333 (404)
                      +|    |...|...+..|.+..+.+-|.++..-+....    +.|+.   .-|..+....++....+.-...++.|.-.-
T Consensus       349 kp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~  428 (625)
T KOG4422|consen  349 KPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSA  428 (625)
T ss_pred             cCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce
Confidence            22    22334444555555555555555544443321    11221   123344444455555555555555555444


Q ss_pred             CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhcc
Q 015590          334 MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTF  385 (404)
Q Consensus       334 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  385 (404)
                      +-|+..+..-++++....|.++-..+++..++..|..-+...-..++.-++.
T Consensus       429 y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~  480 (625)
T KOG4422|consen  429 YFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLAR  480 (625)
T ss_pred             ecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhc
Confidence            4455555555555555566666666666666555554444444444444443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=8.1e-13  Score=120.68  Aligned_cols=282  Identities=7%  Similarity=0.018  Sum_probs=217.1

Q ss_pred             hcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHH--HHHHHHHhcCcHh
Q 015590          103 QAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN--LVLNLLVSAKLYG  180 (404)
Q Consensus       103 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~  180 (404)
                      ..|+++.|++.........   ..+...+.+......+.|+++.|.+.|.++.+..  |+.....  .....+...|+++
T Consensus        96 ~eGd~~~A~k~l~~~~~~~---~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~--~~~~~~~~l~~a~l~l~~g~~~  170 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHA---EQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENH  170 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcc---cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHH
Confidence            3699999998888765432   2233344444444356999999999999998754  6654333  3356788999999


Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcH-------HHHHHHHHHHHHcCCHHHHH
Q 015590          181 EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNV-------RTYSTLMHGLCEKGNVEEAF  253 (404)
Q Consensus       181 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~A~  253 (404)
                      .|.+.++.+.+.. |-+......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...
T Consensus       171 ~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~  249 (398)
T PRK10747        171 AARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLK  249 (398)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            9999999999886 667889999999999999999999999999987644322       23344444444555666667


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 015590          254 GLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER  333 (404)
Q Consensus       254 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  333 (404)
                      ++++.+... .+.++.....+...+...|+.++|.+++++..+.  .|+...  .++.+....++.+++.+..+...+. 
T Consensus       250 ~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~-  323 (398)
T PRK10747        250 RWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQ-  323 (398)
T ss_pred             HHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhh-
Confidence            777666443 2347778889999999999999999999999885  455522  2344445569999999999999876 


Q ss_pred             CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHh
Q 015590          334 MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       334 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  398 (404)
                      .+-|...+..+...|.+.|++++|.+.|+...  ...|+..++..+-..+...|+.+.+...++.
T Consensus       324 ~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al--~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~  386 (398)
T PRK10747        324 HGDTPLLWSTLGQLLMKHGEWQEASLAFRAAL--KQRPDAYDYAWLADALDRLHKPEEAAAMRRD  386 (398)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH--hcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            34566678889999999999999999999999  5679999999999999999998888777664

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.65  E-value=1.8e-12  Score=111.60  Aligned_cols=341  Identities=12%  Similarity=0.084  Sum_probs=207.2

Q ss_pred             cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH
Q 015590           50 LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF  129 (404)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  129 (404)
                      +-+.+..++..+|.++++--..+.|.+++.+... ...+.+..+||.+|.+-.-.-    ..++..+|.... ..|+-.+
T Consensus       202 ~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~-~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqk-m~Pnl~T  275 (625)
T KOG4422|consen  202 TLPKTDETVSIMIAGLCKFSSLERARELYKEHRA-AKGKVYREAFNGLIGASSYSV----GKKLVAEMISQK-MTPNLFT  275 (625)
T ss_pred             hcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHH-hhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhh-cCCchHh
Confidence            3344556777777777777777777777777643 334667777777776544322    256666666554 3344444


Q ss_pred             HHHHHHHHHhhcCCHHHH----HHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhH-HHHHHHHHHH----cCC----CC
Q 015590          130 FYNVIKIYGNMAGRISKA----IETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGE-IQGIYTSAAK----LGV----EI  196 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A----~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~----~g~----~~  196 (404)
                      ++.++.+..+ .|+++.|    ++++.+|++.|+.|+..+|..+|..+.+.++..+ +..+..++..    ..+    +.
T Consensus       276 fNalL~c~ak-fg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~  354 (625)
T KOG4422|consen  276 FNALLSCAAK-FGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPT  354 (625)
T ss_pred             HHHHHHHHHH-hcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCc
Confidence            4444444444 6766543    4556667777777777777777777777666543 3333333332    112    22


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCC----CCCc---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQN----CEPN---VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTV  269 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~  269 (404)
                      |...|..-++.|.+..+.+.|.++..-+....    +.|+   ..-|..+....++....+.-...|+.|.-+-.-|+..
T Consensus       355 d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~  434 (625)
T KOG4422|consen  355 DNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQ  434 (625)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCch
Confidence            44556666777777777777776655443210    1222   2235566667777777777777888887776777888


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC-Ch--------h-----HHHHHH-------HH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKK-RF--------P-----EAKELV-------GR  328 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~--------~-----~a~~~~-------~~  328 (404)
                      +...++++..-.|.++-.-++|.++...|...+...-.-++..+++.. ..        .     -|..++       .+
T Consensus       435 ~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R  514 (625)
T KOG4422|consen  435 TMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIR  514 (625)
T ss_pred             hHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            888888888888888888888888887765444444444444444433 11        0     011111       12


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCC-CCCCHHhHH---HHHHhhccCCCCcchhhHHHhh
Q 015590          329 MICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQG-FVPRMGMWR---EIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       329 ~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~---~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      +..  ........+.+.-.+.+.|..++|.+++..+.+.+ -.|.....+   .++.+....+++-.+..+.+.+
T Consensus       515 ~r~--~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  515 QRA--QDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HHh--ccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            222  23445566777778889999999999999997663 334444555   5555666667776666666654

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

Probab=99.65  E-value=1.1e-15  Score=133.26  Aligned_cols=262  Identities=14%  Similarity=0.108  Sum_probs=115.1

Q ss_pred             HHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhh
Q 015590           61 VLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNM  140 (404)
Q Consensus        61 li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  140 (404)
                      +-..+.+.|++++|+++++.......-+.+..-|..+...+...++++.|.+.++.+...+.   ........+..+.. 
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~---~~~~~~~~l~~l~~-   89 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK---ANPQDYERLIQLLQ-   89 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc---cccccccccccccc-
Confidence            35677788999999999965533321133445556666677788999999999999976652   22223333333344 


Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC-CCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG-VEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .+++++|.+++.+..+..  ++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|.+
T Consensus        90 ~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~  167 (280)
T PF13429_consen   90 DGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR  167 (280)
T ss_dssp             ------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH
T ss_pred             cccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            899999999998876643  667778889999999999999999999987543 35678889999999999999999999


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC  299 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  299 (404)
                      .+++..+.. |.|....+.++..+...|+.+++..+++...+.. +.|...+..+..+|...|+.++|...|++..+.. 
T Consensus       168 ~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-  244 (280)
T PF13429_consen  168 DYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-  244 (280)
T ss_dssp             HHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-
Confidence            999998875 4568889999999999999999999998887664 3466778899999999999999999999998863 


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      +.|+.....+.+++...|+.++|.++..+..+
T Consensus       245 p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  245 PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccccc
Confidence            33788888999999999999999999887653

>TIGR00540 hemY_coli hemY protein

Probab=99.63  E-value=1.1e-12  Score=120.57  Aligned_cols=287  Identities=10%  Similarity=-0.021  Sum_probs=148.6

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCH-HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhhcCCHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNE-ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNMAGRIS  145 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~  145 (404)
                      .|+++.|.+.+....+.   .|++ ..+-....+..+.|+.+.|.+.+....+..   |.+. .............|+++
T Consensus        97 ~g~~~~A~~~l~~~~~~---~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~---p~~~l~~~~~~a~l~l~~~~~~  170 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADH---AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA---GNDNILVEIARTRILLAQNELH  170 (409)
T ss_pred             CCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CcCchHHHHHHHHHHHHCCCHH
Confidence            46667777766665432   3332 223333455556677777777776654332   2221 12221122222266677


Q ss_pred             HHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHH---HhcCChHHHHHHHH
Q 015590          146 KAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGL---CENGNLEAAFYVLD  222 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~---~~~g~~~~a~~~~~  222 (404)
                      .|.+.++++.+.. +-+...+..+...+.+.|++++|.+++..+.+.+..++......-..++   ...+..+++...+.
T Consensus       171 ~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~  249 (409)
T TIGR00540       171 AARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLL  249 (409)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHH
Confidence            7777777666654 2244456666666677777777777777776665332222211111222   22222222222333


Q ss_pred             HchhCC---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          223 EFPKQN---CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVT---FNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       223 ~~~~~~---~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      .+.+..   .+.+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.+.+.+.++...+
T Consensus       250 ~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk  327 (409)
T TIGR00540       250 NWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAK  327 (409)
T ss_pred             HHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHH
Confidence            322221   01355666666666777777777777777666652  23221   11111222334566666666666555


Q ss_pred             CCCCCCh---hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          297 KGCYPNS---ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       297 ~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      .  .|+.   ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++..
T Consensus       328 ~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       328 N--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             h--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4  2222   33445666666667777777776643332345666666666667777777777776666543

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.63  E-value=2.9e-12  Score=117.71  Aligned_cols=288  Identities=7%  Similarity=-0.033  Sum_probs=212.9

Q ss_pred             HhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHH--HHHHHHHHHHhcCcH
Q 015590          102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVK--TFNLVLNLLVSAKLY  179 (404)
Q Consensus       102 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~  179 (404)
                      ...|+++.|++.+....+..   +.+...+-+........|+++.|.+.+.+..+..  |+..  .--.....+...|++
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~---~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~  169 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHA---AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNEL  169 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcC---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCH
Confidence            46799999999998876543   3344444444555555899999999999986643  4442  333457788899999


Q ss_pred             hHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHH-HHHHHH---HHcCCHHHHHHH
Q 015590          180 GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYS-TLMHGL---CEKGNVEEAFGL  255 (404)
Q Consensus       180 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~---~~~~~~~~A~~~  255 (404)
                      +.|.+.++.+.+.. |-+..+...+...|...|+++.|.+.+..+.+.+.. +...+. .-..++   ...+..+++.+.
T Consensus       170 ~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~  247 (409)
T TIGR00540       170 HAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDG  247 (409)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHH
Confidence            99999999999986 667788999999999999999999999999988743 333332 112222   333444444556


Q ss_pred             HHHHHHCCCC---CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhh---HHHHHHHHHhcCChhHHHHHHHHH
Q 015590          256 LERMESEGID---ADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSAS---YQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       256 ~~~m~~~~~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      +..+.+....   .+...+..+...+...|+.++|.+++++..+.  .||...   ...........++.+.+.+.++..
T Consensus       248 L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~  325 (409)
T TIGR00540       248 LLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQ  325 (409)
T ss_pred             HHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHH
Confidence            6666554221   27788889999999999999999999999987  344432   122222234457888999999888


Q ss_pred             HHCCCCCCH--HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhh
Q 015590          330 ICERMSPSF--VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       330 ~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      .+. .+-|.  ....++...+.+.|++++|.+.|+........|+...+..+-..+...|+.+.+..+++.-
T Consensus       326 lk~-~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       326 AKN-VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHh-CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            765 23344  5667889999999999999999996544467899999999989999999999998887753

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=99.63  E-value=3.7e-12  Score=126.65  Aligned_cols=296  Identities=12%  Similarity=-0.002  Sum_probs=189.6

Q ss_pred             HhcCCChhHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHhcCC---chHHHHH----------------------HHHHH
Q 015590           65 FSNLRDPISVISVLNQYSK-RKDYNPNEALYTLIINKLAQAKR---FDAIEDI----------------------MQRIK  118 (404)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~-~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~----------------------~~~~~  118 (404)
                      ..+.|+.++|..+|+.... ...-.++......++..|.+.+.   ..++..+                      .+...
T Consensus       386 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  465 (987)
T PRK09782        386 LMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIV  465 (987)
T ss_pred             HHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHH
Confidence            3456778888888887765 22223344444466666666655   2222222                      11211


Q ss_pred             hcccCCCC--hHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCC
Q 015590          119 VEKLCRFS--DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       119 ~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      ..-...|+  +...+..+..++. .+++++|...|.+.....  |+......+...+...|++++|...|+.+...  +|
T Consensus       466 ~al~~~p~~~~~~a~~~LG~~l~-~~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p  540 (987)
T PRK09782        466 RLLGDMSPSYDAAAWNRLAKCYR-DTLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DM  540 (987)
T ss_pred             HhcccCCCCCCHHHHHHHHHHHH-hCCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CC
Confidence            11111122  3333333333333 377778888777766543  55444333444556788888888888877554  44


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIS  276 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~  276 (404)
                      +...+..+...+.+.|++++|...+++..+.+ +.+...+..+.....+.|++++|...|++..+.  .|+...|..+..
T Consensus       541 ~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~  617 (987)
T PRK09782        541 SNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARAT  617 (987)
T ss_pred             CcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            44556666777888888888888888877664 333333333444444558888888888888766  456777788888


Q ss_pred             HHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHH
Q 015590          277 GLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVED  356 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~  356 (404)
                      .+.+.|+.++|+..|++..... +-+...++.+...+...|+.++|++.+++..+.. +-+...+..+..++...|++++
T Consensus       618 ~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~e  695 (987)
T PRK09782        618 IYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAA  695 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            8888888888888888888773 2245667777777888888888888888887652 3456677778888888888888


Q ss_pred             HHHHHHHHHHCCCCCC
Q 015590          357 VDWVLKKMVQQGFVPR  372 (404)
Q Consensus       357 a~~~~~~m~~~~~~p~  372 (404)
                      |+..+++..+  +.|+
T Consensus       696 A~~~l~~Al~--l~P~  709 (987)
T PRK09782        696 TQHYARLVID--DIDN  709 (987)
T ss_pred             HHHHHHHHHh--cCCC
Confidence            8888888874  4454

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.61  E-value=8.4e-12  Score=124.18  Aligned_cols=262  Identities=11%  Similarity=-0.045  Sum_probs=201.6

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLV  169 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  169 (404)
                      +...|..+..++.. ++.++|...+.......   |++.....+...+. ..|++++|...|+++...  +|+...+..+
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~---Pd~~~~L~lA~al~-~~Gr~eeAi~~~rka~~~--~p~~~a~~~l  548 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ---PDAWQHRAVAYQAY-QVEDYATALAAWQKISLH--DMSNEDLLAA  548 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC---CchHHHHHHHHHHH-HCCCHHHHHHHHHHHhcc--CCCcHHHHHH
Confidence            67778888877776 89999999888776554   33332112222223 489999999999987654  3555567777


Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ...+.+.|++++|.+.++...+.. +.+...+..+.....+.|++++|...+++..+.  .|+...|..+...+.+.|++
T Consensus       549 a~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~  625 (987)
T PRK09782        549 ANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNV  625 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCH
Confidence            888899999999999999998875 334444444444555669999999999999877  46788999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ++|+..|++....... +...++.+...+...|+.++|+..+++..+... -+...+..+..++...|++++|+..+++.
T Consensus       626 deA~~~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P-~~~~a~~nLA~al~~lGd~~eA~~~l~~A  703 (987)
T PRK09782        626 PAAVSDLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLP-DDPALIRQLAYVNQRLDDMAATQHYARLV  703 (987)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999999887543 566788888899999999999999999988732 25678889999999999999999999999


Q ss_pred             HHCCCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          330 ICERMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       330 ~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      .+.  .|+. .+.........+..+++.+.+-++...
T Consensus       704 l~l--~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~  738 (987)
T PRK09782        704 IDD--IDNQALITPLTPEQNQQRFNFRRLHEEVGRRW  738 (987)
T ss_pred             Hhc--CCCCchhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            875  4544 444445556666667777777766655

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.61  E-value=9.1e-12  Score=121.50  Aligned_cols=156  Identities=17%  Similarity=0.132  Sum_probs=76.5

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN  139 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  139 (404)
                      .++..+...|+.++|+..++++.  ...+........+...+...|++++|.++++.+.+..   |++......+...+.
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~--~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d---P~n~~~l~gLa~~y~  147 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQ--SSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD---PTNPDLISGMIMTQA  147 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhc--cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---CCCHHHHHHHHHHHh
Confidence            55555555566666666666554  1112222233333445555566666666666655443   222222222222222


Q ss_pred             hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      ..++.++|++.++++....  |+...+..++..+...++..+|++.++++.+.. |.+...+..++.+..+.|-...|.+
T Consensus       148 ~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~  224 (822)
T PRK14574        148 DAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALR  224 (822)
T ss_pred             hcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHH
Confidence            3566666666666655543  444444333333333344444666666666553 3445555555666666666666655


Q ss_pred             HHHH
Q 015590          220 VLDE  223 (404)
Q Consensus       220 ~~~~  223 (404)
                      +..+
T Consensus       225 l~~~  228 (822)
T PRK14574        225 LAKE  228 (822)
T ss_pred             HHHh
Confidence            5544

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

Probab=99.59  E-value=8.4e-13  Score=119.62  Aligned_cols=288  Identities=10%  Similarity=-0.002  Sum_probs=219.6

Q ss_pred             ChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh-hcCCHHHHH
Q 015590           70 DPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN-MAGRISKAI  148 (404)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~  148 (404)
                      +.++|+..|......  +.-+..+...+..+|-..+++++|+++|+.+.........+..++..+.-..+ ...---.|.
T Consensus       334 ~~~~A~~~~~klp~h--~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH--HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHhhHHh--cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            457899999985432  33445778888999999999999999999998776444445444443333322 111122334


Q ss_pred             HHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          149 ETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       149 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      ++.+..+     -.+.+|.++.++|.-.++.+.|++.|++..+.. +-...+|+.+..-+....++|.|...|.......
T Consensus       412 ~Li~~~~-----~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~  485 (638)
T KOG1126|consen  412 DLIDTDP-----NSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD  485 (638)
T ss_pred             HHHhhCC-----CCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC
Confidence            4444433     356899999999999999999999999998764 3478899999888999999999999999888432


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHH
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQE  308 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  308 (404)
                       +.+-.+|--+...|.+.++++.|+-.|++..+-+.. +.+....+...+-+.|+.|+|++++++....... |+..--.
T Consensus       486 -~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~  562 (638)
T KOG1126|consen  486 -PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYH  562 (638)
T ss_pred             -chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHH
Confidence             233334445677899999999999999999887655 6777788888899999999999999999877533 4545445


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 015590          309 VLYGLLDKKRFPEAKELVGRMICERMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR  372 (404)
Q Consensus       309 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  372 (404)
                      .+..+...++.++|+..++++++.  .|+. ..|..+...|.+.|+.+.|..-|.-+.+  +.|.
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~--ldpk  623 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALD--LDPK  623 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhc--CCCc
Confidence            566677889999999999999884  5655 5667777999999999999999988884  4443

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

Probab=99.56  E-value=3.5e-11  Score=100.11  Aligned_cols=273  Identities=14%  Similarity=0.075  Sum_probs=202.2

Q ss_pred             hcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccH------HHHHHHHHHHHhc
Q 015590          103 QAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSV------KTFNLVLNLLVSA  176 (404)
Q Consensus       103 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~~~~~ll~~~~~~  176 (404)
                      -.++.++|.+.|-+|.+.+   +......-.+..++++.|..|+|+++.+.+.+.   ||.      ...-.|..-|-..
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d---~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~a  120 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED---PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAA  120 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC---chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHh
Confidence            4578899999999987654   444445556777777799999999999988774   443      2344566678888


Q ss_pred             CcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcH----HHHHHHHHHHHHcCCHHHH
Q 015590          177 KLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNV----RTYSTLMHGLCEKGNVEEA  252 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A  252 (404)
                      |-+|.|+.+|..+.+.| ..-......|+..|-...+|++|.++-+++.+.+-.+..    .-|..+...+....+.+.|
T Consensus       121 Gl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A  199 (389)
T COG2956         121 GLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRA  199 (389)
T ss_pred             hhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHH
Confidence            99999999999998765 445567788999999999999999999988876533332    2466677777778899999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          253 FGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       253 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      ..++.+..+.+.+ .+..-..+.+.+...|+++.|.+.++...+.+...-+.+...|..+|.+.|+.++...++..+.+.
T Consensus       200 ~~~l~kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         200 RELLKKALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHHHHHHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            9999998876433 333344566778889999999999999999866656678889999999999999999999998876


Q ss_pred             CCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCC
Q 015590          333 RMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGK  387 (404)
Q Consensus       333 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  387 (404)
                      .  +....-..+.+.-....-.+.|..++.+-+  .-+|+...+..++..-....
T Consensus       279 ~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql--~r~Pt~~gf~rl~~~~l~da  329 (389)
T COG2956         279 N--TGADAELMLADLIELQEGIDAAQAYLTRQL--RRKPTMRGFHRLMDYHLADA  329 (389)
T ss_pred             c--CCccHHHHHHHHHHHhhChHHHHHHHHHHH--hhCCcHHHHHHHHHhhhccc
Confidence            3  333334444443333444556665555444  35699999999998554433

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

Probab=99.55  E-value=4.1e-11  Score=112.26  Aligned_cols=326  Identities=12%  Similarity=0.032  Sum_probs=238.0

Q ss_pred             HHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCC
Q 015590           64 IFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGR  143 (404)
Q Consensus        64 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  143 (404)
                      .+++ |+.++|..++.+.++..  +-....|..|...|-..|+.+++...+-.+....   |.+...|..+..+..+.|+
T Consensus       149 lfar-g~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~---p~d~e~W~~ladls~~~~~  222 (895)
T KOG2076|consen  149 LFAR-GDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN---PKDYELWKRLADLSEQLGN  222 (895)
T ss_pred             HHHh-CCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC---CCChHHHHHHHHHHHhccc
Confidence            4444 99999999999998764  6678899999999999999999998887765544   6677889888888888999


Q ss_pred             HHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH----HHHHHHHhcCChHHHHH
Q 015590          144 ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN----ILLKGLCENGNLEAAFY  219 (404)
Q Consensus       144 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~----~li~~~~~~g~~~~a~~  219 (404)
                      ++.|.-.|.+..+.. +++...+-.-...|-+.|+...|..-|.++.....+.|..-+.    ..+..+...++-+.|.+
T Consensus       223 i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  223 INQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999998865 3444555556778899999999999999998875333333333    34566777788899999


Q ss_pred             HHHHchhC-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH--------------------------H
Q 015590          220 VLDEFPKQ-NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTF--------------------------N  272 (404)
Q Consensus       220 ~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~--------------------------~  272 (404)
                      .++..... +-..+...++.++..|.+...++.|......+......+|..-|                          .
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            88877652 22456677889999999999999999998888763222222111                          1


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHhhCC--CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          273 ILISGLRKQGKVEEGMKLLERMKGKG--CYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN  350 (404)
Q Consensus       273 ~li~~~~~~g~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  350 (404)
                      -+.-++.+....+....+.....+..  +.-+...|.-+..++.+.|++.+|+.++..+......-+...|..+.++|..
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~  461 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYME  461 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHH
Confidence            22233344444444444555555554  3345677888889999999999999999999876555567788889999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHhHHH-HHHhhccCCCCcchhhHHHh
Q 015590          351 QKLVEDVDWVLKKMVQQGFVPRMGMWRE-IVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       351 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~~~~~~~~  398 (404)
                      .|.+++|.+.|+..+  ...|+..--+. |-.-+...|+.+.+.+..+-
T Consensus       462 l~e~e~A~e~y~kvl--~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  462 LGEYEEAIEFYEKVL--ILAPDNLDARITLASLYQQLGNHEKALETLEQ  508 (895)
T ss_pred             HhhHHHHHHHHHHHH--hcCCCchhhhhhHHHHHHhcCCHHHHHHHHhc
Confidence            999999999999988  45565443222 22344466777766665554

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.52  E-value=9.5e-11  Score=102.07  Aligned_cols=308  Identities=13%  Similarity=0.057  Sum_probs=182.4

Q ss_pred             HHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhhcC
Q 015590           64 IFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNMAG  142 (404)
Q Consensus        64 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g  142 (404)
                      ++......++++.-.+... ..|++-+...-+....+.-...+++.|+.+|+.+.+.+....++. .+.|.+-.--.+..
T Consensus       236 a~~el~q~~e~~~k~e~l~-~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLS-SVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHH-hccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            4444445566666666553 345555555555555555566777777777777766653333332 22233322211111


Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLD  222 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  222 (404)
                      -.-.|..+++-=+     -.+.|+..+.+-|+-.++.++|...|+...+.+ +.....|+.+..-|....+...|..-+.
T Consensus       315 Ls~LA~~v~~idK-----yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  315 LSYLAQNVSNIDK-----YRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             HHHHHHHHHHhcc-----CCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHH
Confidence            1112222222111     123466666666666777777777777777665 4456667777777777777777777777


Q ss_pred             HchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC
Q 015590          223 EFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN  302 (404)
Q Consensus       223 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  302 (404)
                      ...+-+ |.|-..|-.+.++|.-.+.+.-|+-.|++..+-.+. |...|.+|...|.+.++.++|+..|......| ..+
T Consensus       389 rAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte  465 (559)
T KOG1155|consen  389 RAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTE  465 (559)
T ss_pred             HHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccc
Confidence            777665 667777777777777777777777777777665322 66777777777777777777777777777665 224


Q ss_pred             hhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhH
Q 015590          303 SASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPS--FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMW  376 (404)
Q Consensus       303 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  376 (404)
                      ...+..|.+.|-+.++..+|...|...++.    |...+  .....-|..-+.+.+++++|..+.......  .+...--
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~--~~e~eea  543 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKG--ETECEEA  543 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC--CchHHHH
Confidence            566777777777777777777777665542    32222  122223445566677777776665555422  4444444


Q ss_pred             HHHHHhh
Q 015590          377 REIVGCV  383 (404)
Q Consensus       377 ~~ll~~~  383 (404)
                      +.|++.+
T Consensus       544 k~LlRei  550 (559)
T KOG1155|consen  544 KALLREI  550 (559)
T ss_pred             HHHHHHH
Confidence            4555444

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

Probab=99.51  E-value=1.5e-10  Score=99.13  Aligned_cols=284  Identities=14%  Similarity=0.080  Sum_probs=160.9

Q ss_pred             CChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHH
Q 015590           69 RDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAI  148 (404)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  148 (404)
                      |++..|.....+..+ .+ +.....|..-..+-...|+.+.+-+++.++.+.. ..++-............ .|+++.|.
T Consensus        98 G~~~qAEkl~~rnae-~~-e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~-~~~~l~v~ltrarlll~-~~d~~aA~  173 (400)
T COG3071          98 GDFQQAEKLLRRNAE-HG-EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELA-GDDTLAVELTRARLLLN-RRDYPAAR  173 (400)
T ss_pred             CcHHHHHHHHHHhhh-cC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccC-CCchHHHHHHHHHHHHh-CCCchhHH
Confidence            666666666666532 22 2223344455555566667777777766665432 01111112222222232 56666666


Q ss_pred             HHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH-------hHHHHHHHHHHhcCChHHHHHHH
Q 015590          149 ETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA-------CCLNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       149 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~-------~~~~~li~~~~~~g~~~~a~~~~  221 (404)
                      .-.+++.+.+ +.++.......++|.+.|++..+..+...+.+.|.-.|.       .+|..+++-....+..+.-...|
T Consensus       174 ~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W  252 (400)
T COG3071         174 ENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWW  252 (400)
T ss_pred             HHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHH
Confidence            6666666544 234456666666777777777777777777766654432       35555565555555555555566


Q ss_pred             HHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-CCC
Q 015590          222 DEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK-GCY  300 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~  300 (404)
                      +.....- +.+...-.+++.-+.+.|+.++|.++.++..+.+..|+    -...-.+.+-++.+.-.+..+.-.+. +. 
T Consensus       253 ~~~pr~l-r~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~~-  326 (400)
T COG3071         253 KNQPRKL-RNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHPE-  326 (400)
T ss_pred             HhccHHh-hcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCCC-
Confidence            6554432 33445555666666677777777777666666655444    11222344555555555555544443 22 


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       301 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                       ++..+.+|-..|.+.+.|.+|.+.|+...+  ..|+..+|+.+.+++.+.|+.++|.++.++...
T Consensus       327 -~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         327 -DPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             -ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence             335566666667777777777777776554  356777777777777777777777776666553

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

Probab=99.49  E-value=5.9e-10  Score=95.63  Aligned_cols=284  Identities=12%  Similarity=0.072  Sum_probs=228.0

Q ss_pred             hcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHH
Q 015590          103 QAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEI  182 (404)
Q Consensus       103 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  182 (404)
                      ..|+|.+|++...+-.+.+   +.+...+..-...+.+.|+.+.+-..+.+.-+.--.++....-+..+.....|++..|
T Consensus        96 ~eG~~~qAEkl~~rnae~~---e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA  172 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHG---EQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAA  172 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcC---cchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhH
Confidence            4699999999999876554   3334444444455556999999999999998853246667778888889999999999


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcH-------HHHHHHHHHHHHcCCHHHHHHH
Q 015590          183 QGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNV-------RTYSTLMHGLCEKGNVEEAFGL  255 (404)
Q Consensus       183 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~li~~~~~~~~~~~A~~~  255 (404)
                      ..-.+++.+.+ +-+.........+|.+.|++.....+...+.+.|+-.|.       .+|+.+++-....+..+.-...
T Consensus       173 ~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~  251 (400)
T COG3071         173 RENVDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTW  251 (400)
T ss_pred             HHHHHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHH
Confidence            99999999887 677889999999999999999999999999999865554       4688888877777777776667


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 015590          256 LERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS  335 (404)
Q Consensus       256 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  335 (404)
                      +++...+ .+-++..-.+++.-+..+|+.++|.++..+..+++..|+    -+..-.+.+-++...-++..++..+. .+
T Consensus       252 W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~-h~  325 (400)
T COG3071         252 WKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ-HP  325 (400)
T ss_pred             HHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh-CC
Confidence            7666433 233566777888889999999999999999999866655    22233466778888888888777654 34


Q ss_pred             CCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHh
Q 015590          336 PSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       336 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  398 (404)
                      .++..+.++...|.+++.|.+|...|+...  ...|+..+|+.+-.++..-|+...+..+.+.
T Consensus       326 ~~p~L~~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e  386 (400)
T COG3071         326 EDPLLLSTLGRLALKNKLWGKASEALEAAL--KLRPSASDYAELADALDQLGEPEEAEQVRRE  386 (400)
T ss_pred             CChhHHHHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHHHHcCChHHHHHHHHH
Confidence            455788999999999999999999999776  7889999999999999999999998887765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=8.1e-11  Score=99.69  Aligned_cols=199  Identities=14%  Similarity=-0.004  Sum_probs=129.2

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.+++..+.+ +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3455666666677777777777777666553 3445566666677777777777777777666554 4455566666677


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      +...|++++|...|++.......+ ....+..+...+...|++++|...+.+..... +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            777777777777777766542211 23445556666777777777777777776653 1234566667777777777777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          322 AKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      |.+.+++..+. .+.+...+..+...+...|+.++|..+.+.+.
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            77777777665 23455566666677777777777777766665

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.

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

Probab=99.47  E-value=5.3e-10  Score=105.01  Aligned_cols=349  Identities=13%  Similarity=0.135  Sum_probs=246.0

Q ss_pred             CCCCCCccchhh---cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHH
Q 015590           38 ASHQDSDHHAYK---LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIM  114 (404)
Q Consensus        38 ~~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  114 (404)
                      |....+..++.+   ..+.+...|.+|-.+|-+.|+.++++..+-.+-..  .+.|..-|..+.....+.|++++|.-+|
T Consensus       153 g~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            444444444443   35667889999999999999999999988776432  3667789999999999999999999999


Q ss_pred             HHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHH----HHHHHHHHhcCcHhHHHHHHHHHH
Q 015590          115 QRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTF----NLVLNLLVSAKLYGEIQGIYTSAA  190 (404)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~----~~ll~~~~~~~~~~~a~~~~~~~~  190 (404)
                      .++.+..  |+.-...+.-...+-+ .|+...|.+.|.++.....+.|..-+    -.++..+...++-+.|.+.++...
T Consensus       231 ~rAI~~~--p~n~~~~~ers~L~~~-~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  231 SRAIQAN--PSNWELIYERSSLYQK-TGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHhcC--CcchHHHHHHHHHHHH-hChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9998765  2333445555555544 99999999999999886522222222    334556677777789999888877


Q ss_pred             HcC-CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHH----------------------H----HHHHHH
Q 015590          191 KLG-VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTY----------------------S----TLMHGL  243 (404)
Q Consensus       191 ~~g-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~----------------------~----~li~~~  243 (404)
                      ..+ -..+...++.++..|.+...++.|......+......+|..-|                      +    -++-++
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL  387 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICL  387 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhh
Confidence            632 2455667889999999999999998888777652222222111                      1    122333


Q ss_pred             HHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          244 CEKGNVEEAFGLLERMESEG--IDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      ...+..+....+...+.+..  +.-+...|.-+..+|...|++.+|..+|..+......-+...|--+..+|...|..++
T Consensus       388 ~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~  467 (895)
T KOG2076|consen  388 VHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEE  467 (895)
T ss_pred             hcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHH
Confidence            44444444444555555554  3334567888999999999999999999999988444467799999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHH--------HCCCCCCHHhHHHHHHhhccCCCCcch
Q 015590          322 AKELVGRMICERMSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMV--------QQGFVPRMGMWREIVGCVTFGKDNRNR  392 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~--------~~~~~p~~~~~~~ll~~~~~~~~~~~~  392 (404)
                      |.+.++.....  .|+ ...--+|-..+-+.|+.++|.+.+..+.        ..+..|+....-.....+...|+.+..
T Consensus       468 A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~f  545 (895)
T KOG2076|consen  468 AIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEF  545 (895)
T ss_pred             HHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHH
Confidence            99999999875  443 3455566778889999999999999854        223444444443344445555555544


Q ss_pred             h
Q 015590          393 V  393 (404)
Q Consensus       393 ~  393 (404)
                      .
T Consensus       546 i  546 (895)
T KOG2076|consen  546 I  546 (895)
T ss_pred             H
Confidence            3

>PF13041 PPR_2: PPR repeat family

Probab=99.46  E-value=2.2e-13  Score=84.37  Aligned_cols=50  Identities=50%  Similarity=0.893  Sum_probs=32.2

Q ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          231 PNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK  280 (404)
Q Consensus       231 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  280 (404)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            56666666666666666666666666666666666666666666666653

>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.45  E-value=5.4e-10  Score=97.50  Aligned_cols=165  Identities=13%  Similarity=0.005  Sum_probs=146.9

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISG  277 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  277 (404)
                      +.|+.++.+-|+-.++.++|...|+...+.+ +.....|+.|..-|....+...|.+-++...+-... |-..|-.|.++
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~p~-DyRAWYGLGQa  407 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDINPR-DYRAWYGLGQA  407 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcCch-hHHHHhhhhHH
Confidence            3456667788888899999999999999887 677889999999999999999999999999887544 88899999999


Q ss_pred             HHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHH
Q 015590          278 LRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDV  357 (404)
Q Consensus       278 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a  357 (404)
                      |.-.+.+.-|+-.|++..... +-|...|.+|..+|.+.++.++|++.|......| ..+...+..+.+.|-+.++.++|
T Consensus       408 Yeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHH
Confidence            999999999999999998873 3377899999999999999999999999998875 45668899999999999999999


Q ss_pred             HHHHHHHHH
Q 015590          358 DWVLKKMVQ  366 (404)
Q Consensus       358 ~~~~~~m~~  366 (404)
                      ...|.+.++
T Consensus       486 a~~yek~v~  494 (559)
T KOG1155|consen  486 AQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHH
Confidence            999988776

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=1.1e-10  Score=111.42  Aligned_cols=250  Identities=12%  Similarity=0.046  Sum_probs=174.1

Q ss_pred             CCchHHHHHHHHHHhcccCCCChHHHHHHHHHH-H--------hhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh
Q 015590          105 KRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIY-G--------NMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS  175 (404)
Q Consensus       105 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~--------~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~  175 (404)
                      +++++|.+.|++..+..   |.....+..+... .        ...+++++|...+++..+.+ +-+...+..+...+..
T Consensus       275 ~~~~~A~~~~~~Al~ld---P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~  350 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS---PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTI  350 (553)
T ss_pred             HHHHHHHHHHHHHHhcC---CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            45788999999887665   4444433333221 1        12355899999999988865 2356678888888889


Q ss_pred             cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHH
Q 015590          176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGL  255 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  255 (404)
                      .|++++|...|++..+.. |.+...+..+...+...|++++|...+++..+.+ +.+...+..++..+...|++++|...
T Consensus       351 ~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             ccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHhccCHHHHHHH
Confidence            999999999999999886 5567788888999999999999999999988875 33333444455567778999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHC-C
Q 015590          256 LERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS-ASYQEVLYGLLDKKRFPEAKELVGRMICE-R  333 (404)
Q Consensus       256 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~  333 (404)
                      +++......+-+...+..+...+...|+.++|...+.++...  .|+. ...+.+...|...|  +.|...++.+.+. +
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~  504 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQ  504 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhh
Confidence            999876532224555677788888999999999999887665  3343 34455555667666  4788877776653 1


Q ss_pred             CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          334 MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       334 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ..+....+  +-..+.-.|+-+.+... +++.+.
T Consensus       505 ~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        505 RIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             HhhcCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            22322222  33445556666666555 777654

>PRK12370 invasion protein regulator; Provisional

Probab=99.44  E-value=2.6e-10  Score=108.81  Aligned_cols=244  Identities=9%  Similarity=0.031  Sum_probs=179.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHH---------hcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          141 AGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLV---------SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      .+..++|.+.|++..+..  |+ ...|..+..++.         ..+++++|...+++..+.. +.+...+..+...+..
T Consensus       274 ~~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~  350 (553)
T PRK12370        274 PYSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTI  350 (553)
T ss_pred             HHHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            356789999999998865  65 445665555443         2345889999999999886 6678888889999999


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      .|++++|...|++..+.+ +.+...|..+...+...|++++|+..+++..+.... +...+..++..+...|++++|...
T Consensus       351 ~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        351 HSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             ccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHH
Confidence            999999999999998886 566778899999999999999999999999887543 222333445556678999999999


Q ss_pred             HHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHHC-C
Q 015590          291 LERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ-G  368 (404)
Q Consensus       291 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~  368 (404)
                      +++......+-+...+..+..++...|+.++|.+.+.++...  .|+ ....+.+...|...|  ++|...++.+.+. .
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~  504 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQ  504 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhh
Confidence            999876532224455777788888999999999999998654  444 344555666777777  5888888887764 4


Q ss_pred             CCCCHHhHHHHHHhhccCCCCcchhhH
Q 015590          369 FVPRMGMWREIVGCVTFGKDNRNRVYV  395 (404)
Q Consensus       369 ~~p~~~~~~~ll~~~~~~~~~~~~~~~  395 (404)
                      -.|....+..++.+  ..|+.+.+..+
T Consensus       505 ~~~~~~~~~~~~~~--~~g~~~~~~~~  529 (553)
T PRK12370        505 RIDNNPGLLPLVLV--AHGEAIAEKMW  529 (553)
T ss_pred             HhhcCchHHHHHHH--HHhhhHHHHHH
Confidence            44444444444443  33444444333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=1.1e-10  Score=98.81  Aligned_cols=203  Identities=18%  Similarity=0.078  Sum_probs=167.5

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          196 IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       196 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                      .....+..+...|...|++++|...+++..+.. +.+...+..+...|...|++++|...+++..+.... +...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHH
Confidence            345678888999999999999999999988765 556788899999999999999999999999877543 566788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCh
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGC-YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLV  354 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  354 (404)
                      ..+...|++++|...+++..+... ......+..+...+...|++++|.+.+.+..... +.+...+..+...+...|++
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            999999999999999999987532 2234567778888999999999999999998753 34567888889999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          355 EDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       355 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      ++|...+++..+. ...+...+..+...+...|+.+.+..+.+.+...
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999999999876 3345566667777777888988888887776653

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=99.42  E-value=2.7e-09  Score=96.98  Aligned_cols=328  Identities=11%  Similarity=0.044  Sum_probs=166.3

Q ss_pred             CCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHH
Q 015590           56 LSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIK  135 (404)
Q Consensus        56 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~  135 (404)
                      .+|+.--..|.+.+..+.|..+|...++.  ++.+...|......=-..|..++...+++++...-   |....+|.+..
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv--fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~---pkae~lwlM~a  591 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV--FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC---PKAEILWLMYA  591 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh--ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC---CcchhHHHHHH
Confidence            45666666666666666666666666543  24444555555544444555555555555544332   22333333322


Q ss_pred             HHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChH
Q 015590          136 IYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLE  215 (404)
Q Consensus       136 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~  215 (404)
                      .-.-..|++..|..++....+.. +.+...|-.-+.......+++.|..+|.+....  .|+..+|.--++.---.++.+
T Consensus       592 ke~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~e  668 (913)
T KOG0495|consen  592 KEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVE  668 (913)
T ss_pred             HHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHH
Confidence            22222455555555555544433 113334555555555555555555555544432  233333433333333344445


Q ss_pred             HHHHHHHHchhCC---------------------------------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          216 AAFYVLDEFPKQN---------------------------------CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       216 ~a~~~~~~~~~~~---------------------------------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +|.+++++..+.-                                 ++-....|-.+...=-+.|.+-+|..++++...+
T Consensus       669 eA~rllEe~lk~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  669 EALRLLEEALKSFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            5554444443331                                 1223334444444444444555555555554444


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 015590          263 GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYK  342 (404)
Q Consensus       263 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  342 (404)
                      +.+ +...|-..|++-.+.|+.+.|..+..+..+. ++-+...|..-|....+.++-......+.+     ..-|+...-
T Consensus       749 NPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALkk-----ce~dphVll  821 (913)
T KOG0495|consen  749 NPK-NALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALKK-----CEHDPHVLL  821 (913)
T ss_pred             CCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHHh-----ccCCchhHH
Confidence            333 4445555555555555555555555444443 111233344444433333332222222221     234556666


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCCCCCH-HhHHHHHHhhccCCCCcchhhHHHhhh
Q 015590          343 KLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM-GMWREIVGCVTFGKDNRNRVYVTETVD  400 (404)
Q Consensus       343 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~~~~~~~~~~  400 (404)
                      ++...+.....+++|++.|.+.+  .+.||. .+|.-+...+..+|..+....|+++-.
T Consensus       822 aia~lfw~e~k~~kar~Wf~Rav--k~d~d~GD~wa~fykfel~hG~eed~kev~~~c~  878 (913)
T KOG0495|consen  822 AIAKLFWSEKKIEKAREWFERAV--KKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCE  878 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH--ccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            67777778888899999998888  445554 477777777788888777777776543

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

Probab=99.42  E-value=5.6e-11  Score=107.99  Aligned_cols=272  Identities=10%  Similarity=-0.028  Sum_probs=200.6

Q ss_pred             CchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCC--CCccHHHHHHHHHHHHhcCcHhHHH
Q 015590          106 RFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYN--CWPSVKTFNLVLNLLVSAKLYGEIQ  183 (404)
Q Consensus       106 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~  183 (404)
                      +..+|...|..+...-  .-+..+...+-.+|.. -+++++|.++|+.+.+..  ..-+...|.+.+--+   .+.-+--
T Consensus       334 ~~~~A~~~~~klp~h~--~nt~wvl~q~GrayFE-l~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHL---q~~v~Ls  407 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHH--YNTGWVLSQLGRAYFE-LIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHL---QDEVALS  407 (638)
T ss_pred             HHHHHHHHHHhhHHhc--CCchHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhccccccchhHHHHHHHHH---HhhHHHH
Confidence            4677888888865443  1222444456667776 899999999999887743  111345666665433   2222222


Q ss_pred             HHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 015590          184 GIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG  263 (404)
Q Consensus       184 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  263 (404)
                      -+-+++.+.. +..+.+|.++.++|.-.++.+.|.+.|++..+.+ +....+|+.+..-+.....+|+|...|+..... 
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            2334444443 5678899999999999999999999999999875 447889999988899999999999999988765 


Q ss_pred             CCCCHHHH---HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH
Q 015590          264 IDADTVTF---NILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS  340 (404)
Q Consensus       264 ~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  340 (404)
                         |+..|   --+.-.|.+.++++.|+-.|++..+-+.. +.+....+...+.+.|+.++|+++++++...+ +.|+..
T Consensus       485 ---~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~  559 (638)
T KOG1126|consen  485 ---DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLC  559 (638)
T ss_pred             ---CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchh
Confidence               55555   45677899999999999999999987533 66777778888999999999999999998764 234444


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHH-HhhccCCCCcchh
Q 015590          341 YKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV-GCVTFGKDNRNRV  393 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll-~~~~~~~~~~~~~  393 (404)
                      ---....+...+++++|...+++++  .+.|+..+...++ +.|.+-|..+.+.
T Consensus       560 ~~~~~~il~~~~~~~eal~~LEeLk--~~vP~es~v~~llgki~k~~~~~~~Al  611 (638)
T KOG1126|consen  560 KYHRASILFSLGRYVEALQELEELK--ELVPQESSVFALLGKIYKRLGNTDLAL  611 (638)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHH--HhCcchHHHHHHHHHHHHHHccchHHH
Confidence            4445677888999999999999999  5778876555444 4666666554443

>PF13041 PPR_2: PPR repeat family

Probab=99.41  E-value=7.5e-13  Score=81.98  Aligned_cols=49  Identities=47%  Similarity=0.748  Sum_probs=27.8

Q ss_pred             CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHH
Q 015590          266 ADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLL  314 (404)
Q Consensus       266 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  314 (404)
                      ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|++|+
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            4555555555555555555555555555555555555555555555554

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

Probab=99.38  E-value=6.8e-11  Score=110.49  Aligned_cols=248  Identities=14%  Similarity=0.147  Sum_probs=152.8

Q ss_pred             hCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc
Q 015590           83 KRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS  162 (404)
Q Consensus        83 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~  162 (404)
                      +..|+.|+..||..+|..||..|+.+.|- +|.-|.... .+.....+..++.+... +++.+.+.           .|.
T Consensus        17 e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ks-Lpv~e~vf~~lv~sh~~-And~Enpk-----------ep~   82 (1088)
T KOG4318|consen   17 EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKS-LPVREGVFRGLVASHKE-ANDAENPK-----------EPL   82 (1088)
T ss_pred             HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhccc-ccccchhHHHHHhcccc-cccccCCC-----------CCc
Confidence            56789999999999999999999999998 888886554 33444555555555454 77776654           478


Q ss_pred             HHHHHHHHHHHHhcCcHhH---HHHHHHHHH----HcCCCCCHhH--------------HHHHHHHHHhcCChHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGE---IQGIYTSAA----KLGVEIDACC--------------LNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~---a~~~~~~~~----~~g~~~~~~~--------------~~~li~~~~~~g~~~~a~~~~  221 (404)
                      ..||..+..+|...||...   +++.+....    ..|+......              -...+....-.|-++.+.+++
T Consensus        83 aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll  162 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLL  162 (1088)
T ss_pred             hhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999998764   222111111    1221111110              112223333344555555555


Q ss_pred             HHchhCCCCCcHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC
Q 015590          222 DEFPKQNCEPNVRTYSTLMHGLCEKG-NVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY  300 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  300 (404)
                      ..+....-. .  .+..+++-+.... .+++-....+...+   .|++.+|.+++..-...|+.+.|..++.+|.+.|++
T Consensus       163 ~~~Pvsa~~-~--p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  163 AKVPVSAWN-A--PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             hhCCccccc-c--hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            544432100 0  1111233322222 23333333333322   467777777777777778888888888888887777


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 015590          301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKL  353 (404)
Q Consensus       301 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  353 (404)
                      .+.+-|..|+-+   .++...+..++.-|.+.|+.|+..|+...+..+..+|.
T Consensus       237 ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            777777777655   66777777777777777788887777777766666554

>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=99.37  E-value=2.3e-09  Score=99.28  Aligned_cols=291  Identities=11%  Similarity=0.075  Sum_probs=208.0

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHH-h--
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYG-N--  139 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~-~--  139 (404)
                      ..+...|++++|++.++.-..  .+......+......+.+.|+.++|..++..+...+   |++..++..+.... .  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN---Pdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN---PDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHhhhc
Confidence            466788999999999987632  244445667788889999999999999999998876   67777777665554 1  


Q ss_pred             --hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHH
Q 015590          140 --MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLY-GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEA  216 (404)
Q Consensus       140 --~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  216 (404)
                        ...+.+...++++++...-  |.......+.-.+.....+ ..+..++..+...|+|+   +|+.+-..|....+.+-
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~  161 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAI  161 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHH
Confidence              1235788888998886643  4444333332222222233 34566677777888654   56667677776655555


Q ss_pred             HHHHHHHchhC----C----------CCCcHHHH--HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Q 015590          217 AFYVLDEFPKQ----N----------CEPNVRTY--STLMHGLCEKGNVEEAFGLLERMESEGIDAD-TVTFNILISGLR  279 (404)
Q Consensus       217 a~~~~~~~~~~----~----------~~~~~~~~--~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~  279 (404)
                      ...++......    +          -+|+...|  .-+...|-..|++++|+..+++..+.  .|+ +..|..-.+.+-
T Consensus       162 i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilK  239 (517)
T PF12569_consen  162 IESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILK  239 (517)
T ss_pred             HHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHH
Confidence            55555554321    1          13444444  55677888999999999999999887  344 567778889999


Q ss_pred             cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH------HH--HHHHHHHHcC
Q 015590          280 KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV------SY--KKLIHGLCNQ  351 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~------~~--~~li~~~~~~  351 (404)
                      +.|++.+|.+.++........ |...-+-.+..+.++|+.++|.+++..+.+.+..|...      .|  .....+|.+.
T Consensus       240 h~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~  318 (517)
T PF12569_consen  240 HAGDLKEAAEAMDEARELDLA-DRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQ  318 (517)
T ss_pred             HCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999987533 66777778888999999999999999998766443221      12  3345688999


Q ss_pred             CChHHHHHHHHHHHH
Q 015590          352 KLVEDVDWVLKKMVQ  366 (404)
Q Consensus       352 g~~~~a~~~~~~m~~  366 (404)
                      |++..|++-|..+.+
T Consensus       319 ~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  319 GDYGLALKRFHAVLK  333 (517)
T ss_pred             hhHHHHHHHHHHHHH
Confidence            999999888877665

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 [], [].

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

Probab=99.37  E-value=2.6e-09  Score=93.14  Aligned_cols=208  Identities=12%  Similarity=0.025  Sum_probs=150.2

Q ss_pred             cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHH
Q 015590          176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGL  255 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  255 (404)
                      .|++++|.+.|++.....-......|| +.-.+-+.|++++|+..|-.+...= ..+..+.-.+.+.|-...+..+|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            566777777777776553222222333 2334566788888888776654321 23556666677778888888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 015590          256 LERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS  335 (404)
Q Consensus       256 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  335 (404)
                      +-+.... ++-|+...+-|...|-+.|+-..|.+.+-+--+- ++-+..+..-|...|....-+++++.+|++..-  +.
T Consensus       581 ~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iq  656 (840)
T KOG2003|consen  581 LMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQ  656 (840)
T ss_pred             HHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cC
Confidence            7655433 3346777888888899999999988887655443 344677878888888888889999999998764  68


Q ss_pred             CCHHHHHHHHHHH-HcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCc
Q 015590          336 PSFVSYKKLIHGL-CNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNR  390 (404)
Q Consensus       336 p~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  390 (404)
                      |+..-|..++..| .+.|++++|.++++...++ +.-|..+...|++.+..-|..+
T Consensus       657 p~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvri~~dlgl~d  711 (840)
T KOG2003|consen  657 PNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLGLKD  711 (840)
T ss_pred             ccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHHHhccccchh
Confidence            9999999888655 5689999999999998764 7778889999998876655543

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

Probab=99.37  E-value=1.3e-09  Score=103.20  Aligned_cols=112  Identities=13%  Similarity=0.041  Sum_probs=83.6

Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHH
Q 015590          282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVL  361 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  361 (404)
                      +..++|+++|.+..+.. +-|...-|-+.-.++..|++.+|..+|....+.. .-+..+|-.+..+|...|++..|+++|
T Consensus       626 k~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~qy~~AIqmY  703 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQYRLAIQMY  703 (1018)
T ss_pred             HHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHHHHHHHHHH
Confidence            34577888888887764 2355666677777888889999999998888764 234456777888888999999999999


Q ss_pred             HHHHHC-CCCCCHHhHHHHHHhhccCCCCcchhhH
Q 015590          362 KKMVQQ-GFVPRMGMWREIVGCVTFGKDNRNRVYV  395 (404)
Q Consensus       362 ~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~~~~~  395 (404)
                      +...+. .-.-++.+.+.|-+++...+.++.+...
T Consensus       704 e~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~  738 (1018)
T KOG2002|consen  704 ENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEA  738 (1018)
T ss_pred             HHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHH
Confidence            877765 5556677788888888888876666543

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

Probab=99.35  E-value=3.5e-10  Score=94.38  Aligned_cols=234  Identities=13%  Similarity=0.032  Sum_probs=193.2

Q ss_pred             HHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          132 NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       132 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      +-+..++.+-|.+.+|.+.|+.-...-  |-+.||-.|-+.|.+..++..|+.++.+-.+. +|-|+....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            344444444999999999999877753  77789999999999999999999999988765 355665566778888889


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLL  291 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  291 (404)
                      ++.++|.++++...+.. +.++.+..++...|.-.++++-|+..|+++.+-|+. +...|+.+.-+|...+++|-++.-|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            99999999999988775 667778888888899999999999999999999988 8889999998999999999999999


Q ss_pred             HHHhhCCCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCC
Q 015590          292 ERMKGKGCYPN--SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGF  369 (404)
Q Consensus       292 ~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  369 (404)
                      .+....-..|+  ..+|-.+-......|++..|.+.|+-...++ .-+...++.+.-.-.+.|++++|+.+++...  .+
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~--s~  458 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAK--SV  458 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhh--hh
Confidence            98877643343  3678888888888899999999999988763 3455788888888889999999999999887  45


Q ss_pred             CCCH
Q 015590          370 VPRM  373 (404)
Q Consensus       370 ~p~~  373 (404)
                      .|+.
T Consensus       459 ~P~m  462 (478)
T KOG1129|consen  459 MPDM  462 (478)
T ss_pred             Cccc
Confidence            5654

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

Probab=99.34  E-value=2.1e-09  Score=93.73  Aligned_cols=184  Identities=10%  Similarity=0.042  Sum_probs=140.2

Q ss_pred             hcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 015590          210 ENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMK  289 (404)
Q Consensus       210 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  289 (404)
                      ..|++++|.+.+.+.....-.-....||. --.+-..|+.++|++.|-++..-- .-+......+.+.|....+...|.+
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~il-~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAIL-LNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            35788899998888875432222233332 234567889999999998775321 1266677778888988999999999


Q ss_pred             HHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCC
Q 015590          290 LLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGF  369 (404)
Q Consensus       290 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  369 (404)
                      ++-..... ++-|+....-|...|-+.|+-..|.+.+-+--.- ++-+..+...|..-|....-++++..+|++..  -+
T Consensus       580 ~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa--li  655 (840)
T KOG2003|consen  580 LLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LI  655 (840)
T ss_pred             HHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hc
Confidence            98776654 3447788899999999999999999887654432 56788898888889999999999999999876  68


Q ss_pred             CCCHHhHHHHHHhh-ccCCCCcchhhHHHhh
Q 015590          370 VPRMGMWREIVGCV-TFGKDNRNRVYVTETV  399 (404)
Q Consensus       370 ~p~~~~~~~ll~~~-~~~~~~~~~~~~~~~~  399 (404)
                      +|+..-|..++..| .+.|+...+..+++.+
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~  686 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDI  686 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            99999999999855 5778887777776655

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

Probab=99.32  E-value=4.2e-09  Score=99.85  Aligned_cols=201  Identities=9%  Similarity=0.045  Sum_probs=142.8

Q ss_pred             CcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC-CCCcHHHHHHHHHHHHH----------
Q 015590          177 KLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN-CEPNVRTYSTLMHGLCE----------  245 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~----------  245 (404)
                      +...+|...+.+..... ..++..+..+.+.+.+..++..|.+-|....+.- ..+|..+.-+|.+.|.+          
T Consensus       544 ~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~e  622 (1018)
T KOG2002|consen  544 NNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPE  622 (1018)
T ss_pred             cCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChH
Confidence            34444444444444332 3344555556667777777777777555554331 12455555555565543          


Q ss_pred             --cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          246 --KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       246 --~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                        .+..++|+++|.+......+ |...-|-+.-.++..|++.+|..+|....+... -...+|-.+..+|...|++..|+
T Consensus       623 k~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  623 KEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHH
Confidence              23567899999998887655 777778888889999999999999999998843 25578999999999999999999


Q ss_pred             HHHHHHHHC-CCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 015590          324 ELVGRMICE-RMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV  380 (404)
Q Consensus       324 ~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  380 (404)
                      ++|+...+. .-..+......|.+++...|.+.+|.+.+-........-....+|..+
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~  758 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLAL  758 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHH
Confidence            999987655 445677889999999999999999999998887543333334455444

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

Probab=99.28  E-value=4.8e-08  Score=85.86  Aligned_cols=148  Identities=14%  Similarity=0.100  Sum_probs=101.5

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKA  147 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  147 (404)
                      .++.+.|.++|+.++...  ..+...|..-+.+=.++..+..|..++++....-  |.-+..++..+.. -..-|++..|
T Consensus        86 q~e~~RARSv~ERALdvd--~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l--PRVdqlWyKY~ym-EE~LgNi~ga  160 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVD--YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL--PRVDQLWYKYIYM-EEMLGNIAGA  160 (677)
T ss_pred             HHHHHHHHHHHHHHHhcc--cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc--chHHHHHHHHHHH-HHHhcccHHH
Confidence            456778889999887543  4456667777777778888888999998876542  2223333333333 3347889999


Q ss_pred             HHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          148 IETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       148 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      .++|++-.+  ..|+...|.+.|+.-.+-+.++.|..+|+...-.  .|++.+|--....--++|+...|..+|+..
T Consensus       161 RqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerA  233 (677)
T KOG1915|consen  161 RQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERA  233 (677)
T ss_pred             HHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            999988766  4588889999888888888888888888887643  466666655555555555555554444443

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

Probab=99.27  E-value=1e-08  Score=90.31  Aligned_cols=221  Identities=15%  Similarity=0.082  Sum_probs=137.9

Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHH
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFG  254 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  254 (404)
                      -.|+.-.+..-|+..++... .+...|.-+..+|....+.++..+.|+...+.+ +-|..+|..-...+.-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHH
Confidence            35677778888887777642 223336666777777788888888888777665 5566667666666667777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 015590          255 LLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERM  334 (404)
Q Consensus       255 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  334 (404)
                      =|++....... +...|..+.-+.-+.++++++...|++..++ ++-.+.+|+.....+...++++.|.+.|+..++...
T Consensus       416 DF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  416 DFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            77777665333 4556666666666777777777777777766 233456777777777777777777777777665311


Q ss_pred             C-----CCHH--HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-hHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          335 S-----PSFV--SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       335 ~-----p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      .     .++.  .--+++..- -.+++..|.+++.+..+  +.|... .|..|-..-.+.++.+++..++|.--.+
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             ccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            1     1111  111222111 23667777777777663  334332 4555555556667777766666654333

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

Probab=99.25  E-value=1.6e-08  Score=90.57  Aligned_cols=277  Identities=12%  Similarity=0.018  Sum_probs=196.7

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN  139 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  139 (404)
                      .--.-+...+++.+.+.+++...+..+  +....+..-|..+...|+..+...+=..+...-   |+....|-.+..|+-
T Consensus       249 ~~ad~~y~~c~f~~c~kit~~lle~dp--fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y---P~~a~sW~aVg~YYl  323 (611)
T KOG1173|consen  249 EKADRLYYGCRFKECLKITEELLEKDP--FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY---PSKALSWFAVGCYYL  323 (611)
T ss_pred             HHHHHHHHcChHHHHHHHhHHHHhhCC--CCcchHHHHHHHHHHhcccchHHHHHHHHHHhC---CCCCcchhhHHHHHH
Confidence            334456667888899999998887664  444555556667888888777666666665543   566666777777776


Q ss_pred             hcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAF  218 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  218 (404)
                      .-|+.++|.+.|.+....+  |+ ...|-.....|+-.|..++|+..|...-+.= +-...-+--+.--|.+.++++.|.
T Consensus       324 ~i~k~seARry~SKat~lD--~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  324 MIGKYSEARRYFSKATTLD--PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HhcCcHHHHHHHHHHhhcC--ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHH
Confidence            6899999999998876533  33 3578888888888999999988887776541 111111222444577788899999


Q ss_pred             HHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC----CCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          219 YVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE--GID----ADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~--~~~----p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      +.|.+..... |.|+...+-+.-.....+.+.+|..+|+.....  .+.    .-..+++.|..+|.+.+..++|+..|+
T Consensus       401 ~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q  479 (611)
T KOG1173|consen  401 KFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQ  479 (611)
T ss_pred             HHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHH
Confidence            9998877665 667777887777777788888998888876521  111    134457778888888888888888888


Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGL  348 (404)
Q Consensus       293 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~  348 (404)
                      ...... +-+..++.++.-.|...|+++.|.+.|.+...  +.|+..+...++..+
T Consensus       480 ~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  480 KALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHH
Confidence            877763 33677788888888888888888888888775  577776666666533

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.23  E-value=1.6e-08  Score=88.68  Aligned_cols=228  Identities=14%  Similarity=0.007  Sum_probs=146.8

Q ss_pred             cCCHHHHHHHHhhcccCC-CCcc--HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHH
Q 015590          141 AGRISKAIETLFDMPSYN-CWPS--VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a  217 (404)
                      .+..+.++.-+.++.... ..|+  ...|..+...+...|++++|...|++..+.. +.+...|+.+...|...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            345566666666665421 1222  3457777778888888888888888888765 55678888888888888888888


Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|+...+.. +.+..+|..+...+...|++++|++.|+...+..  |+..........+...++.++|.+.|.+....
T Consensus       118 ~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        118 YEAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            88888887764 4456777778888888888888888888887763  33322222222334567888888888665533


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC---C--CCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 015590          298 GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE---R--MSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       298 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~--~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  371 (404)
                      . .|+.  |.. .......|+..++ +.+..+.+.   .  ..| ....|..+...+...|++++|...|++..+.+ .|
T Consensus       195 ~-~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~-~~  268 (296)
T PRK11189        195 L-DKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN-VY  268 (296)
T ss_pred             C-Cccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-Cc
Confidence            2 2222  221 1223335555554 344444422   0  111 23567788888888999999999998888543 23


Q ss_pred             CHHhHHH
Q 015590          372 RMGMWRE  378 (404)
Q Consensus       372 ~~~~~~~  378 (404)
                      |..-+..
T Consensus       269 ~~~e~~~  275 (296)
T PRK11189        269 NFVEHRY  275 (296)
T ss_pred             hHHHHHH
Confidence            4444443

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

Probab=99.23  E-value=6.7e-09  Score=86.93  Aligned_cols=230  Identities=10%  Similarity=-0.029  Sum_probs=189.0

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHH-HHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTY-STLMHGLC  244 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~li~~~~  244 (404)
                      -+.+.++|.+.|.+.+|+.-++.-.+.  .|-+.||-.|-..|.+..+++.|+.+|.+-.+.  .|-.+|| .-+...+-
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHH
Confidence            367889999999999999999988877  567778889999999999999999999998876  4555554 55777888


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHH
Q 015590          245 EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKE  324 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  324 (404)
                      ..++.++|.++|+...+.... ++....++...|...++++.|+..|+++..-|+. ++..|+.+.-+|.-.+++|-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            899999999999999876433 5666677778888899999999999999999976 88999999999999999999999


Q ss_pred             HHHHHHHCCCCCCH--HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          325 LVGRMICERMSPSF--VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       325 ~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      -|++....-..|+.  ..|-.+-......|++.-|.+.|+-....+-. +...++-|----.+.|+.+.+..+.+.-++.
T Consensus       380 sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  380 SFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            99998876444544  46777888888999999999999988754322 3346666655557889999998888766554

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

Probab=99.19  E-value=2.1e-07  Score=85.12  Aligned_cols=312  Identities=12%  Similarity=-0.008  Sum_probs=243.8

Q ss_pred             CCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCC--CCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHH
Q 015590           56 LSPTEVLKIFSNLRDPISVISVLNQYSKRKDYN--PNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV  133 (404)
Q Consensus        56 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  133 (404)
                      ..|-.=-..|-+.|.+-.+..+....+. -|+.  .-..||..-...|.+.+.++-|+.+|....+-.   |....+|.-
T Consensus       480 dqWl~eAe~~e~agsv~TcQAIi~avig-igvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf---p~k~slWlr  555 (913)
T KOG0495|consen  480 DQWLKEAEACEDAGSVITCQAIIRAVIG-IGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF---PCKKSLWLR  555 (913)
T ss_pred             HHHHHHHHHHhhcCChhhHHHHHHHHHh-hccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc---cchhHHHHH
Confidence            3455555566666777777777666643 2222  235689999999999999999999999987643   677888888


Q ss_pred             HHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC
Q 015590          134 IKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN  213 (404)
Q Consensus       134 l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  213 (404)
                      ...+-+..|..+.-..+|++....- +-....|-.....+...|+...|..++....+.. +.+..+|-+-+..-....+
T Consensus       556 a~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e  633 (913)
T KOG0495|consen  556 AAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDE  633 (913)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhcccc
Confidence            8888888999999999999998753 3455677777788888999999999999999876 5578899999999999999


Q ss_pred             hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          214 LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADT-VTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ++.|..+|.+....  .|+...|.--+..---.+..++|.+++++..+.  -|+- ..|..+.+.+-+.++++.|...|.
T Consensus       634 ~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~  709 (913)
T KOG0495|consen  634 LERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYL  709 (913)
T ss_pred             HHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence            99999999998876  578888887777777889999999999998876  4453 467777888889999999999887


Q ss_pred             HHhhCCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 015590          293 RMKGKGCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       293 ~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  371 (404)
                      .-.+.  -|+ ...|-.|...--+.|.+-.|..++++.+..+ +-+...|-..|+.=.+.|+.+.|..+..+.++. +..
T Consensus       710 ~G~k~--cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~  785 (913)
T KOG0495|consen  710 QGTKK--CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPS  785 (913)
T ss_pred             hcccc--CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCc
Confidence            66554  343 4567677777777889999999999988764 557788999999999999999999888777653 333


Q ss_pred             CHHhHHHHHH
Q 015590          372 RMGMWREIVG  381 (404)
Q Consensus       372 ~~~~~~~ll~  381 (404)
                      +...|..-|.
T Consensus       786 sg~LWaEaI~  795 (913)
T KOG0495|consen  786 SGLLWAEAIW  795 (913)
T ss_pred             cchhHHHHHH
Confidence            3334444333

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

Probab=99.19  E-value=3.2e-07  Score=83.21  Aligned_cols=305  Identities=10%  Similarity=0.001  Sum_probs=186.4

Q ss_pred             CHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHH--
Q 015590           57 SPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEA-LYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV--  133 (404)
Q Consensus        57 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~--  133 (404)
                      .|..+...+...|+++.+...+....+.....++.. ........+...|++++|.+.++......   |.+...+..  
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~---P~~~~a~~~~~   84 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY---PRDLLALKLHL   84 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHhH
Confidence            444455566666788887777777655443333332 22233445678899999999999887653   344333321  


Q ss_pred             -HHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          134 -IKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       134 -l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                       ........+..+.+.+.+.....  ..|+ ......+...+...|++++|.+.+++..+.. +.+...+..+...|...
T Consensus        85 ~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          85 GAFGLGDFSGMRDHVARVLPLWAP--ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHhcccccCchhHHHHHhccCc--CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence             11111224666667776665222  2243 3345566678889999999999999999875 55677888899999999


Q ss_pred             CChHHHHHHHHHchhCCC-CCcH--HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHHcCCCH
Q 015590          212 GNLEAAFYVLDEFPKQNC-EPNV--RTYSTLMHGLCEKGNVEEAFGLLERMESEGI-DADTVTF-N--ILISGLRKQGKV  284 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~~  284 (404)
                      |++++|...+++...... .++.  ..|..+...+...|++++|..+|++...... .+..... +  .++.-+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            999999999998776431 1232  3455788889999999999999999864432 1122111 1  223333444433


Q ss_pred             HHHHHH--HHHH-hhCCC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC---C-----CHHHHHHHHHHHHcCC
Q 015590          285 EEGMKL--LERM-KGKGC-YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS---P-----SFVSYKKLIHGLCNQK  352 (404)
Q Consensus       285 ~~a~~~--~~~m-~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~---p-----~~~~~~~li~~~~~~g  352 (404)
                      +.+.++  .... ..... ............++...|+.++|..+++.+......   -     .........-++...|
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g  321 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEG  321 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcC
Confidence            333332  2111 11100 111122235666778889999999999988764211   0     1111122223456889


Q ss_pred             ChHHHHHHHHHHHHC
Q 015590          353 LVEDVDWVLKKMVQQ  367 (404)
Q Consensus       353 ~~~~a~~~~~~m~~~  367 (404)
                      +.++|.+.+......
T Consensus       322 ~~~~A~~~L~~al~~  336 (355)
T cd05804         322 NYATALELLGPVRDD  336 (355)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999887643

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.18  E-value=5.7e-08  Score=85.19  Aligned_cols=218  Identities=14%  Similarity=0.023  Sum_probs=125.3

Q ss_pred             CChhHHHHHHHHHhhCCCCCCC--HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHH
Q 015590           69 RDPISVISVLNQYSKRKDYNPN--EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISK  146 (404)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  146 (404)
                      +..+.++.-+.+++......|+  ...|..+...+...|++++|...|+...+..   |++...++.+...+...|++++
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~---P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR---PDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---CCCHHHHHHHHHHHHHCCCHHH
Confidence            4667788888888765444443  3456677777778888888888887776554   4444444444444444788888


Q ss_pred             HHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHch
Q 015590          147 AIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       147 A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  225 (404)
                      |...|++..+..  |+ ..+|..+...+...|++++|.+.++...+..  |+..........+...++.++|...|....
T Consensus       117 A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        117 AYEAFDSVLELD--PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            888887777643  43 4566667777777778888888777777653  322212222223344566777777775544


Q ss_pred             hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CC--C-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          226 KQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG---ID--A-DTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       226 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~---~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      ... .++...|   .......|+..++ ..+..+.+..   +.  | ....|..+...+.+.|+.++|...|++..+.+
T Consensus       193 ~~~-~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        193 EKL-DKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             hhC-CccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            321 2222111   1222234444433 2334433211   00  0 22356666666666677777777776666553

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

Probab=99.18  E-value=1.9e-07  Score=80.82  Aligned_cols=297  Identities=11%  Similarity=-0.020  Sum_probs=216.5

Q ss_pred             HhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCH
Q 015590           65 FSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRI  144 (404)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  144 (404)
                      .+..++...|...+--+....-++.|......+.+.+...|+.++|+..|+.....+.........+.   .+..+.|+.
T Consensus       206 q~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya---~LL~~eg~~  282 (564)
T KOG1174|consen  206 QMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYA---VLLGQEGGC  282 (564)
T ss_pred             HHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHH---HHHHhccCH
Confidence            33446666666666665555567888999999999999999999999999998655421111222222   223347888


Q ss_pred             HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          145 SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      +....+...+.... +-+...|-.-.......++++.|+.+-+..++.. +.+...+-.-.+.+...|++++|.-.|...
T Consensus       283 e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~A  360 (564)
T KOG1174|consen  283 EQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTA  360 (564)
T ss_pred             hhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHH
Confidence            88888887776532 1334456555666677889999999998888764 445556666667788899999999999987


Q ss_pred             hhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHH-cCCCHHHHHHHHHHHhhCCCCCC
Q 015590          225 PKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI-SGLR-KQGKVEEGMKLLERMKGKGCYPN  302 (404)
Q Consensus       225 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li-~~~~-~~g~~~~a~~~~~~m~~~~~~p~  302 (404)
                      .... |-+..+|.-++..|...|++.+|...-++.... ++.+..+.+.+. ..+. ...--++|.+++++-.+.  .|+
T Consensus       361 q~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~  436 (564)
T KOG1174|consen  361 QMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPI  436 (564)
T ss_pred             Hhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCc
Confidence            7654 568899999999999999999998776654432 122445554442 2222 223357899999887766  454


Q ss_pred             -hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 015590          303 -SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG  374 (404)
Q Consensus       303 -~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  374 (404)
                       ....+.+...+...|..+.++.+++.....  .||....+.+.+.+...+.+++|...|....  .+.|+..
T Consensus       437 Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~AL--r~dP~~~  505 (564)
T KOG1174|consen  437 YTPAVNLIAELCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKAL--RQDPKSK  505 (564)
T ss_pred             cHHHHHHHHHHHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHH--hcCccch
Confidence             345667777788899999999999998874  7999999999999999999999999999888  4556544

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

Probab=99.17  E-value=2.3e-07  Score=84.17  Aligned_cols=305  Identities=11%  Similarity=-0.009  Sum_probs=183.0

Q ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHH
Q 015590           91 EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVL  170 (404)
Q Consensus        91 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll  170 (404)
                      ...|..+...+...|+.+.+.+.+...........+......+-.......|++++|.+.+++..+.. +.|...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            44566666667777888887777776554432222322222222223334899999999999987754 223334442 2


Q ss_pred             HHHHh----cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc
Q 015590          171 NLLVS----AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK  246 (404)
Q Consensus       171 ~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  246 (404)
                      ..+..    .+..+.+.+.+... ....+........+...+...|++++|...+++..+.. +.+...+..+...|...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            22222    34445555555441 11122334455566778899999999999999998876 56677888899999999


Q ss_pred             CCHHHHHHHHHHHHHCCCC-CCH--HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC-CCChhhH-H--HHHHHHHhcCCh
Q 015590          247 GNVEEAFGLLERMESEGID-ADT--VTFNILISGLRKQGKVEEGMKLLERMKGKGC-YPNSASY-Q--EVLYGLLDKKRF  319 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~-p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~~  319 (404)
                      |++++|...+++....... |+.  ..|..+...+...|+.++|..++++...... .+..... +  .++.-+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            9999999999998765322 232  3456788889999999999999999865422 1122111 1  223333444544


Q ss_pred             hHHHHH--H-HHHHHCCC-CCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCC------CCHHhHHHHHHh--hccCC
Q 015590          320 PEAKEL--V-GRMICERM-SPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFV------PRMGMWREIVGC--VTFGK  387 (404)
Q Consensus       320 ~~a~~~--~-~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~------p~~~~~~~ll~~--~~~~~  387 (404)
                      +.+.+.  + ........ ............++...|+.++|..+++.+......      ....+-..++.+  +...|
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g  321 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEG  321 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcC
Confidence            333333  2 21111100 111122235667788999999999999998764222      111122233333  34666


Q ss_pred             CCcchhhHHHhh
Q 015590          388 DNRNRVYVTETV  399 (404)
Q Consensus       388 ~~~~~~~~~~~~  399 (404)
                      +.+.+..++...
T Consensus       322 ~~~~A~~~L~~a  333 (355)
T cd05804         322 NYATALELLGPV  333 (355)
T ss_pred             CHHHHHHHHHHH
Confidence            766666655544

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.

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

Probab=99.17  E-value=7e-09  Score=97.41  Aligned_cols=240  Identities=15%  Similarity=0.157  Sum_probs=150.1

Q ss_pred             cCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH
Q 015590           52 HKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY  131 (404)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  131 (404)
                      .||.+||.++|..|+..|+.+.|- +|.-|. -...+.+...|+.++......++.+.+.            .|...++.
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~-~ksLpv~e~vf~~lv~sh~~And~Enpk------------ep~aDtyt   87 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFME-IKSLPVREGVFRGLVASHKEANDAENPK------------EPLADTYT   87 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhh-cccccccchhHHHHHhcccccccccCCC------------CCchhHHH
Confidence            467788888888888888888777 777763 3344445555555555555555544432            12223333


Q ss_pred             HHHHHHHhhcCCHH-----------------------HHHHHHhhccc-CCCCccHHHHHHHHHHHHhcCcHhHHHHHHH
Q 015590          132 NVIKIYGNMAGRIS-----------------------KAIETLFDMPS-YNCWPSVKTFNLVLNLLVSAKLYGEIQGIYT  187 (404)
Q Consensus       132 ~~l~~~~~~~g~~~-----------------------~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  187 (404)
                      +++..|.. .||..                       ....++..+.- .+.-||.   ...+....-.|-|+.++++..
T Consensus        88 ~Ll~ayr~-hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda---~n~illlv~eglwaqllkll~  163 (1088)
T KOG4318|consen   88 NLLKAYRI-HGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDA---ENAILLLVLEGLWAQLLKLLA  163 (1088)
T ss_pred             HHHHHHHh-ccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhH---HHHHHHHHHHHHHHHHHHHHh
Confidence            33333333 44433                       22222222211 1112222   223344455566666666665


Q ss_pred             HHHHcCC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 015590          188 SAAKLGV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA  266 (404)
Q Consensus       188 ~~~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p  266 (404)
                      .+....- .|..+    .++-+...  ....+++........-.|+..+|.+++..-..+|+.+.|..++.+|.+.|+..
T Consensus       164 ~~Pvsa~~~p~~v----fLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpi  237 (1088)
T KOG4318|consen  164 KVPVSAWNAPFQV----FLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPI  237 (1088)
T ss_pred             hCCcccccchHHH----HHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCc
Confidence            5543211 11111    24443332  23333333332221115899999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCC
Q 015590          267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKR  318 (404)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  318 (404)
                      +.+-|-.|+-+   .++...++.+.+.|.+.|+.|+..|+...+..+..+|.
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            99888777765   88899999999999999999999999999888888665

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.15  E-value=2.2e-08  Score=91.91  Aligned_cols=247  Identities=19%  Similarity=0.128  Sum_probs=174.9

Q ss_pred             HHHHHhhcCCHHHHHHHHhhcccC-----C-CCccHH-HHHHHHHHHHhcCcHhHHHHHHHHHHHc-----C--CCCCHh
Q 015590          134 IKIYGNMAGRISKAIETLFDMPSY-----N-CWPSVK-TFNLVLNLLVSAKLYGEIQGIYTSAAKL-----G--VEIDAC  199 (404)
Q Consensus       134 l~~~~~~~g~~~~A~~~~~~m~~~-----~-~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g--~~~~~~  199 (404)
                      +...+...|++++|..+++...+.     | ..|... ..+.+...|...+++++|..+|+.+...     |  .+.-..
T Consensus       205 La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~  284 (508)
T KOG1840|consen  205 LAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAA  284 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHH
Confidence            444444499999999999887553     2 123333 3455777889999999999999988753     2  122245


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchh-----CCC-CCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCC--
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPK-----QNC-EPNVR-TYSTLMHGLCEKGNVEEAFGLLERMESE---GIDAD--  267 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~-~~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~---~~~p~--  267 (404)
                      +++.|..+|.+.|++++|...++...+     .|. .|.+. .++.+...|...+++++|..+++...+.   -+.++  
T Consensus       285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~  364 (508)
T KOG1840|consen  285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNV  364 (508)
T ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccch
Confidence            677788889999999988888776543     121 23333 3566777888999999999999876432   12222  


Q ss_pred             --HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-----C-CCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CC
Q 015590          268 --TVTFNILISGLRKQGKVEEGMKLLERMKGK-----G-CYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICE----RM  334 (404)
Q Consensus       268 --~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~  334 (404)
                        ..+++.|...|.+.|++++|+++|++....     | ..+ ....++.|...|.+.++..+|.++|.+...-    |.
T Consensus       365 ~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~  444 (508)
T KOG1840|consen  365 NLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGP  444 (508)
T ss_pred             HHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCC
Confidence              357899999999999999999999987643     1 122 2456788888999999999999999875532    32


Q ss_pred             -CCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHHC------CCCCCHHhHHHHH
Q 015590          335 -SPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ------GFVPRMGMWREIV  380 (404)
Q Consensus       335 -~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~p~~~~~~~ll  380 (404)
                       .|+ ..+|..|...|...|+++.|.++.+.....      ...|+........
T Consensus       445 ~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  498 (508)
T KOG1840|consen  445 DHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDEKLRL  498 (508)
T ss_pred             CCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHhh
Confidence             233 468899999999999999999999887631      3445554444433

>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=99.14  E-value=1.5e-07  Score=87.55  Aligned_cols=290  Identities=13%  Similarity=0.059  Sum_probs=198.1

Q ss_pred             HHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHH-h
Q 015590           97 IINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLV-S  175 (404)
Q Consensus        97 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~-~  175 (404)
                      ....+...|++++|++.++.-...   .++...+......++.+.|+.++|..+|..+.+.+  |+...|...+..+. -
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~---I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~   84 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ---ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGL   84 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh---CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhh
Confidence            345678999999999999875433   24556666666667767999999999999999987  77776655554443 1


Q ss_pred             -----cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChH-HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          176 -----AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLE-AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       176 -----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                           ..+.+...++|+++...-  |.......+.-.+.....+. .+...+..+...|+|+   +|+.+-..|......
T Consensus        85 ~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~  159 (517)
T PF12569_consen   85 QLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKA  159 (517)
T ss_pred             hcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHH
Confidence                 235778888999887653  33333333322222222333 4455566677777543   455555666655555


Q ss_pred             HHHHHHHHHHHHC----C----------CCCCHH--HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-hhhHHHHHHH
Q 015590          250 EEAFGLLERMESE----G----------IDADTV--TFNILISGLRKQGKVEEGMKLLERMKGKGCYPN-SASYQEVLYG  312 (404)
Q Consensus       250 ~~A~~~~~~m~~~----~----------~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~  312 (404)
                      +-...++......    +          -.|+..  ++..+...|...|+.++|+.+.++..+.  .|+ +..|..-...
T Consensus       160 ~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Kari  237 (517)
T PF12569_consen  160 AIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARI  237 (517)
T ss_pred             HHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            5555666555432    1          124443  4456678888999999999999999988  555 5778888889


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHh------H--HHHHHhhc
Q 015590          313 LLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGM------W--REIVGCVT  384 (404)
Q Consensus       313 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~------~--~~ll~~~~  384 (404)
                      +-+.|++.+|.+.++..+..+ .-|...=+-....+.+.|++++|.+++....+.+..|-...      |  ...-.+|.
T Consensus       238 lKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~  316 (517)
T PF12569_consen  238 LKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYL  316 (517)
T ss_pred             HHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998764 34555666667888999999999999999988776443321      1  12224677


Q ss_pred             cCCCCcchhhHHHhh
Q 015590          385 FGKDNRNRVYVTETV  399 (404)
Q Consensus       385 ~~~~~~~~~~~~~~~  399 (404)
                      +.|+...+..-+..+
T Consensus       317 r~~~~~~ALk~~~~v  331 (517)
T PF12569_consen  317 RQGDYGLALKRFHAV  331 (517)
T ss_pred             HHhhHHHHHHHHHHH
Confidence            777776665555444

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 [], [].

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

Probab=99.13  E-value=5.1e-08  Score=77.94  Aligned_cols=197  Identities=12%  Similarity=-0.047  Sum_probs=130.3

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC  244 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  244 (404)
                      +...+.-.|.+.|+...|..-+++.++.. +.+..+|..+...|-+.|+.+.|.+.|+...+.. +.+..+.|..-.-+|
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-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            44555666777777777777777777765 4556677777777777777777777777766654 455566666666777


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          245 EKGNVEEAFGLLERMESEGIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      ..|++++|...|++....-.-+ -..||..+.-+..+.|+.+.|...|++..+.... ...+...+.....+.|++..|.
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            7777777777777766542111 2346666666667777777777777777666311 3345566666677777777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          324 ELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       324 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      .+++.....+. ++.....--|+.-...|+.+.+-++=..+.
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~  234 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQ  234 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            77777766543 666666666666667777666666555554

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

Probab=99.10  E-value=7e-07  Score=78.77  Aligned_cols=330  Identities=10%  Similarity=-0.015  Sum_probs=172.9

Q ss_pred             CCCccchhhc--ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHH
Q 015590           41 QDSDHHAYKL--NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIK  118 (404)
Q Consensus        41 ~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  118 (404)
                      .-++++|.+-  =+|+...|++.|..=.+-+..+.|..+|+...-   +.|+..+|-.....=-++|++..+..+|+...
T Consensus       158 ~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~VyerAi  234 (677)
T KOG1915|consen  158 AGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARSVYERAI  234 (677)
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            3344444431  246666777777776666777777777776643   24666666666666666777777777776654


Q ss_pred             hcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCC----------------------------------------
Q 015590          119 VEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYN----------------------------------------  158 (404)
Q Consensus       119 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~----------------------------------------  158 (404)
                      +.-....-...+......+-..+..++.|.-+|+-..+.=                                        
T Consensus       235 e~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~  314 (677)
T KOG1915|consen  235 EFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKE  314 (677)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHH
Confidence            3321101111222222222223444444444443332210                                        


Q ss_pred             ---CCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH--hHHH--------HHHHHHHhcCChHHHHHHHHHch
Q 015590          159 ---CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA--CCLN--------ILLKGLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       159 ---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~--------~li~~~~~~g~~~~a~~~~~~~~  225 (404)
                         -+-|-.+|--.++.-...|+.+...++|+..+..- +|-.  ..|.        -.+-.-....+++.+.++|+...
T Consensus       315 v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l  393 (677)
T KOG1915|consen  315 VSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL  393 (677)
T ss_pred             HHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence               01122333334444444455555555555554432 2211  0010        01111122345555555555444


Q ss_pred             hCCCCCcHHHHHHHHHH----HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC
Q 015590          226 KQNCEPNVRTYSTLMHG----LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP  301 (404)
Q Consensus       226 ~~~~~~~~~~~~~li~~----~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  301 (404)
                      +. +|....||.-+=-.    -.++.++..|.+++....  |.-|-..+|...|..-.+.+++|.+..+|++..+-+. -
T Consensus       394 ~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~P-e  469 (677)
T KOG1915|consen  394 DL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSP-E  469 (677)
T ss_pred             hh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcCh-H
Confidence            42 12223333322222    234455555655555443  3456666777777777777788888888888777642 2


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 015590          302 NSASYQEVLYGLLDKKRFPEAKELVGRMICER-MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV  380 (404)
Q Consensus       302 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  380 (404)
                      +..+|.-....-...|+.+.|..+|.-.+... +......|.+.|+-=...|.+++|+.+++.+++.  .+...+|-++.
T Consensus       470 ~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA  547 (677)
T KOG1915|consen  470 NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFA  547 (677)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHH
Confidence            55667666666667788888888888776531 1223345666666666788888888888888754  23333444443

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

Probab=99.09  E-value=1.6e-07  Score=75.09  Aligned_cols=191  Identities=9%  Similarity=0.016  Sum_probs=98.8

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh-HHHHHHHHHHHhhc
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD-GFFYNVIKIYGNMA  141 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  141 (404)
                      -.|.+.|++..|..-+++.++..  +.+..+|..+...|-+.|..+.|.+-|+......   |.+ .+.+|.-..+|. .
T Consensus        43 l~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~---p~~GdVLNNYG~FLC~-q  116 (250)
T COG3063          43 LGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA---PNNGDVLNNYGAFLCA-Q  116 (250)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC---CCccchhhhhhHHHHh-C
Confidence            35555566666666666665442  3334455555556666666666666666554433   223 233333333333 5


Q ss_pred             CCHHHHHHHHhhcccCCCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      |++++|...|++....-.-+ -..+|..+.-+..+.|+.+.|...|++..+.. +-...+.-.+.....+.|++-.|...
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHH
Confidence            56666666666554421111 12355555555555666666666666555543 23334444555555555666666555


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      ++.....+ .++..+.-.-|..--..|+.+.+-+.=..+..
T Consensus       196 ~~~~~~~~-~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         196 LERYQQRG-GAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHHhcc-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            55555544 25555555555555555555555554444443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.02  E-value=2.9e-07  Score=84.66  Aligned_cols=238  Identities=16%  Similarity=0.152  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHc-----CC-CCCHh-HHHHHHHHHHhcCChHHHHHHHHHchhC-----C--
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKL-----GV-EIDAC-CLNILLKGLCENGNLEAAFYVLDEFPKQ-----N--  228 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~-~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~--  228 (404)
                      ..+...+...|...|+++.|+.+++...+.     |. .|... ..+.+...|...+++++|..+|+++...     |  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            346777999999999999999999988765     21 23333 3345778899999999999999988642     2  


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCC-CCH-HHHHHHHHHHHcCCCHHHHHHHHHHHhhC---C
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE-----GID-ADT-VTFNILISGLRKQGKVEEGMKLLERMKGK---G  298 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-----~~~-p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~  298 (404)
                      .+.-..+++.|..+|.+.|++++|...+++..+-     |.. |.. ..++.+...|+..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            1222346777788899999999988888776431     222 222 23567778889999999999999876543   1


Q ss_pred             CCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHHC------CCCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHH-
Q 015590          299 CYPN----SASYQEVLYGLLDKKRFPEAKELVGRMICE------RMSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-  366 (404)
Q Consensus       299 ~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~-  366 (404)
                      +.++    ..+++.|...|...|++++|++++++++..      +..+. -..++.+...|.+.+.+++|.++|.+... 
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            1222    367899999999999999999999988754      11222 34677788899999999999999887543 


Q ss_pred             ---CCC-CCCH-HhHHHHHHhhccCCCCcchhhHHHhhh
Q 015590          367 ---QGF-VPRM-GMWREIVGCVTFGKDNRNRVYVTETVD  400 (404)
Q Consensus       367 ---~~~-~p~~-~~~~~ll~~~~~~~~~~~~~~~~~~~~  400 (404)
                         .|. .|+. .+|.-|...|..-|+.+.+.++.+.+-
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               232 2333 478889999999999999998887653

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

Probab=99.00  E-value=9.3e-07  Score=78.31  Aligned_cols=295  Identities=10%  Similarity=0.032  Sum_probs=200.0

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCC-HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHH--HH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPN-EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI--KI  136 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l--~~  136 (404)
                      ..-.-|.++|.+++|+..|.+.+..   .|| +.-|.....+|...|+|++..+--....+.+     +...-.++  ..
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~l---~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-----P~Y~KAl~RRA~  191 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIEL---CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-----PDYVKALLRRAS  191 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHhc---CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-----cHHHHHHHHHHH
Confidence            4455678889999999999999864   677 7778888999999999999888877765543     22222222  22


Q ss_pred             HHhhcCCHHHHHHHH------hh-------------------------ccc--CCCCccHHHHHHHHHHHHh--------
Q 015590          137 YGNMAGRISKAIETL------FD-------------------------MPS--YNCWPSVKTFNLVLNLLVS--------  175 (404)
Q Consensus       137 ~~~~~g~~~~A~~~~------~~-------------------------m~~--~~~~p~~~~~~~ll~~~~~--------  175 (404)
                      .....|++++|+.=.      +.                         +.+  ..+-|+.....+....+..        
T Consensus       192 A~E~lg~~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~  271 (606)
T KOG0547|consen  192 AHEQLGKFDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDN  271 (606)
T ss_pred             HHHhhccHHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccC
Confidence            223378888876532      11                         111  1122443333333322210        


Q ss_pred             c-----------------C---cHhHHHHHHHHHHHc---CCCCC---------HhHHHHHHHHHHhcCChHHHHHHHHH
Q 015590          176 A-----------------K---LYGEIQGIYTSAAKL---GVEID---------ACCLNILLKGLCENGNLEAAFYVLDE  223 (404)
Q Consensus       176 ~-----------------~---~~~~a~~~~~~~~~~---g~~~~---------~~~~~~li~~~~~~g~~~~a~~~~~~  223 (404)
                      .                 +   .+.++.+.+.+-...   ....+         ..+.......+.-+|+...|..-|+.
T Consensus       272 ~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~  351 (606)
T KOG0547|consen  272 KSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDA  351 (606)
T ss_pred             CCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHH
Confidence            0                 0   111222222111110   00111         12222233345567888999999998


Q ss_pred             chhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh
Q 015590          224 FPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS  303 (404)
Q Consensus       224 ~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  303 (404)
                      .++.. +.+...|--+..+|.+.++.++....|++....+.. |+.+|..=...+.-.+++++|..=|++...... -+.
T Consensus       352 ~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~p-e~~  428 (606)
T KOG0547|consen  352 AIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLDP-ENA  428 (606)
T ss_pred             HHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcCh-hhh
Confidence            88775 233333888888999999999999999999887655 667787777777778999999999999987732 145


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          304 ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       304 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      ..|..+..+..+.+++++++..|++.+++ ++..+..|+-....+...+++++|.+.|+..++
T Consensus       429 ~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  429 YAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            66777777777889999999999999876 677788999999999999999999999999884

>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=98.97  E-value=1.2e-07  Score=82.05  Aligned_cols=252  Identities=13%  Similarity=0.083  Sum_probs=159.6

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      ++-+.-.|++..++.-.+ . ....-..+......+.+++...|+++.+   ...+....   .+......++..|....
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~-~~~~~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~---~~~l~av~~la~y~~~~   79 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-L-KSFSPENKLERDFYQYRSYIALGQYDSV---LSEIKKSS---SPELQAVRLLAEYLSSP   79 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-C-HTSTCHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS---SCCCHHHHHHHHHHCTS
T ss_pred             HHHHHHhhhHHHHHHHhh-c-cCCCchhHHHHHHHHHHHHHHcCChhHH---HHHhccCC---ChhHHHHHHHHHHHhCc
Confidence            345566788888887666 2 2221122345566777888888887643   34443222   33333445566666534


Q ss_pred             CCHHHHHHHHhhcccCCCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      ++-+.++.-+++....+..+ +..........+...|++++|++++...      .+.......+..|.+.++++.|.+.
T Consensus        80 ~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~  153 (290)
T PF04733_consen   80 SDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKE  153 (290)
T ss_dssp             TTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             cchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHH
Confidence            56677777776665544332 3333333334566789999998887532      3566677788899999999999999


Q ss_pred             HHHchhCCCCCcHHHHHHHHHH----HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHG----LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~----~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      ++.|.+.+  .|.. -..+..+    +...+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|..++.+...
T Consensus       154 l~~~~~~~--eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  154 LKNMQQID--EDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             HHHHHCCS--CCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHhcC--CcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99998763  3432 2223333    33344688999999998654 456788888888888999999999999988877


Q ss_pred             CCCCCChhhHHHHHHHHHhcCCh-hHHHHHHHHHHHC
Q 015590          297 KGCYPNSASYQEVLYGLLDKKRF-PEAKELVGRMICE  332 (404)
Q Consensus       297 ~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~  332 (404)
                      .+. -++.+...++.+....|+. +.+.+++.++...
T Consensus       230 ~~~-~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  230 KDP-NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             C-C-CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hcc-CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            642 2567777788877778877 6677788887764

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.

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

Probab=98.97  E-value=3.7e-07  Score=82.12  Aligned_cols=251  Identities=9%  Similarity=0.019  Sum_probs=194.0

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      .+++...+..-|..+...|+..+-..+=.++.+.  .|..+.+|-++.--|.-.|+..+|++.|.+....+  +.-...+
T Consensus       274 dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~--yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD--~~fgpaW  349 (611)
T KOG1173|consen  274 DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL--YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD--PTFGPAW  349 (611)
T ss_pred             CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC--ccccHHH
Confidence            4455666777788999999988888888888654  47778899999999999999999999999976554  1112233


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhccc--CC-CCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHH
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPS--YN-CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKG  207 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~--~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  207 (404)
                      ...-..|.. .|..|.|...+....+  .| ..|    +--+.--|.+.++.+.|.++|.+..... |.|+.+.+-+.-.
T Consensus       350 l~fghsfa~-e~EhdQAmaaY~tAarl~~G~hlP----~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvv  423 (611)
T KOG1173|consen  350 LAFGHSFAG-EGEHDQAMAAYFTAARLMPGCHLP----SLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVV  423 (611)
T ss_pred             HHHhHHhhh-cchHHHHHHHHHHHHHhccCCcch----HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhhe
Confidence            344455555 8899999888876544  12 112    2223445778999999999999998775 7788999999988


Q ss_pred             HHhcCChHHHHHHHHHchhC----C--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          208 LCENGNLEAAFYVLDEFPKQ----N--CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~----~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ....+.+.+|..+|+.....    +  ...-..+++.+..+|.+.+.+++|+..|++......+ |..++.++.-.|...
T Consensus       424 ay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k-~~~~~asig~iy~ll  502 (611)
T KOG1173|consen  424 AYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK-DASTHASIGYIYHLL  502 (611)
T ss_pred             eehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC-chhHHHHHHHHHHHh
Confidence            88999999999999876521    1  0123456888899999999999999999998877554 889999999999999


Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHH
Q 015590          282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLL  314 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  314 (404)
                      |+++.|.+.|.+....  .|+..+...++..+.
T Consensus       503 gnld~Aid~fhKaL~l--~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  503 GNLDKAIDHFHKALAL--KPDNIFISELLKLAI  533 (611)
T ss_pred             cChHHHHHHHHHHHhc--CCccHHHHHHHHHHH
Confidence            9999999999998866  788777777776443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=6.2e-07  Score=74.49  Aligned_cols=291  Identities=13%  Similarity=0.052  Sum_probs=199.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH-HHHHHH
Q 015590           58 PTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF-YNVIKI  136 (404)
Q Consensus        58 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~~l~~  136 (404)
                      +++++.-+.+..++..|++++..-.++.  +.+....+.+..+|-...++..|-..++.+...-   |....+ ..-..+
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 FTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH---PELEQYRLYQAQS   87 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC---hHHHHHHHHHHHH
Confidence            4566667778888999999988776543  4477888889999999999999999999986542   222211 223455


Q ss_pred             HHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHH--HHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCCh
Q 015590          137 YGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNL--LVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNL  214 (404)
Q Consensus       137 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  214 (404)
                      ++. .+.+..|+++...|.+.   |+...-..-+.+  ....+++..+..+.++....|   +..+.+.......+.|++
T Consensus        88 LY~-A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   88 LYK-ACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHH-hcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            565 89999999999998873   332221112222  335678888888888776433   444555555666788999


Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-------------CCH-------------
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-------------ADT-------------  268 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-------------p~~-------------  268 (404)
                      +.|.+-|+...+-+--.....||.-+.. .+.|+.+.|++...++.++|++             ||.             
T Consensus       161 EaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sa  239 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSA  239 (459)
T ss_pred             HHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHH
Confidence            9999999988775434556678766654 4568899999999999888754             221             


Q ss_pred             --HHHHHHHHHHHcCCCHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          269 --VTFNILISGLRKQGKVEEGMKLLERMKGK-GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLI  345 (404)
Q Consensus       269 --~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li  345 (404)
                        ..+|.-...+.+.|+.+.|.+-+.+|..+ ....|++|...+.-.- ..+++.+..+-++-+.... +-...||..++
T Consensus       240 l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlL  317 (459)
T KOG4340|consen  240 LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLL  317 (459)
T ss_pred             HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHH
Confidence              11333334456778999999999888765 4456777776654332 2345656666666665543 23557888888


Q ss_pred             HHHHcCCChHHHHHHHHH
Q 015590          346 HGLCNQKLVEDVDWVLKK  363 (404)
Q Consensus       346 ~~~~~~g~~~~a~~~~~~  363 (404)
                      -.||++.-++-|..++.+
T Consensus       318 llyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  318 LLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHhhhHHHhHHHHHHhh
Confidence            899999888888888765

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.94  E-value=1.4e-05  Score=73.48  Aligned_cols=183  Identities=13%  Similarity=0.060  Sum_probs=122.1

Q ss_pred             cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH
Q 015590           50 LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF  129 (404)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  129 (404)
                      ....+.+.|..+--.+...+++++|+..|..+++-.  +-|...|.-+.-.-++.|+++..........+..   |+...
T Consensus        70 ~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~--~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~---~~~ra  144 (700)
T KOG1156|consen   70 NDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE--KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR---PSQRA  144 (700)
T ss_pred             cCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh---hhhHH
Confidence            345678899988877778889999999999998643  4566777777666778888888877777766543   44444


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCC-CCccHHHHHHHH------HHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYN-CWPSVKTFNLVL------NLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN  202 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~ll------~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  202 (404)
                      .|..........|++..|..+.++..+.. -.|+...|....      ....+.|..++|.+....-... +.-....-.
T Consensus       145 ~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e  223 (700)
T KOG1156|consen  145 SWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEE  223 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhh
Confidence            44433333333899999999988876633 235555554332      3345677777777776655433 111222334


Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHH
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM  240 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  240 (404)
                      +-.+.+.+.+++++|..++..+...  .||..-|...+
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l  259 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGL  259 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHH
Confidence            4566778888888888888888877  35655555443

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.94  E-value=2.7e-05  Score=71.61  Aligned_cols=308  Identities=17%  Similarity=0.170  Sum_probs=170.6

Q ss_pred             CCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc--------------
Q 015590           56 LSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK--------------  121 (404)
Q Consensus        56 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------------  121 (404)
                      ..|...+.-....+-|+.++.+|++.++.     ++..-+--|..+++.+++++|.+.+..+...+              
T Consensus       139 rIW~lyl~Fv~~~~lPets~rvyrRYLk~-----~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw  213 (835)
T KOG2047|consen  139 RIWDLYLKFVESHGLPETSIRVYRRYLKV-----APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLW  213 (835)
T ss_pred             cchHHHHHHHHhCCChHHHHHHHHHHHhc-----CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHH
Confidence            46778888888888888899999888753     33445666777788888888887776543211              


Q ss_pred             --------------------------cCCCCh--HHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHH
Q 015590          122 --------------------------LCRFSD--GFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL  173 (404)
Q Consensus       122 --------------------------~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  173 (404)
                                                ....++  ...|.-+..|+.+.|.+++|.++|++....-  .++.-|..+-++|
T Consensus       214 ~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Y  291 (835)
T KOG2047|consen  214 LELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAY  291 (835)
T ss_pred             HHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHH
Confidence                                      111111  2345556666666888888888887755421  2222233332222


Q ss_pred             Hh------------------------------------------------------------------cCcHhHHHHHHH
Q 015590          174 VS------------------------------------------------------------------AKLYGEIQGIYT  187 (404)
Q Consensus       174 ~~------------------------------------------------------------------~~~~~~a~~~~~  187 (404)
                      +.                                                                  .|+..+....|.
T Consensus       292 a~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyt  371 (835)
T KOG2047|consen  292 AQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYT  371 (835)
T ss_pred             HHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHH
Confidence            11                                                                  111222222222


Q ss_pred             HHHHcCCCC------CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc---HHHHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          188 SAAKLGVEI------DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN---VRTYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       188 ~~~~~g~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      ++.+. +.|      -...|..+.+.|-..|+++.|..+|++..+...+.-   ..+|......=.++.+++.|+.+.+.
T Consensus       372 eAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~  450 (835)
T KOG2047|consen  372 EAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRR  450 (835)
T ss_pred             HHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHh
Confidence            22221 111      122466677778888888888888888776543221   34566666666677778888887776


Q ss_pred             HHHCCCC----------C-------CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          259 MESEGID----------A-------DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       259 m~~~~~~----------p-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      ....--.          |       +...|...++.....|-++....+|+++.+..+. ++.......-.+-.+.-+++
T Consensus       451 A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfee  529 (835)
T KOG2047|consen  451 ATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEE  529 (835)
T ss_pred             hhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHH
Confidence            5432111          1       2234555555555667777777788777766433 22222222222334444556


Q ss_pred             HHHHHHHHHHCCCCCCH-HHHHHHHHHHHc---CCChHHHHHHHHHHHHCCCCCCH
Q 015590          322 AKELVGRMICERMSPSF-VSYKKLIHGLCN---QKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~~-~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      +.+++++-+..=..|+. ..|+..+.-+.+   ....+.|+.+|++.++ |..|..
T Consensus       530 sFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~  584 (835)
T KOG2047|consen  530 SFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEH  584 (835)
T ss_pred             HHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHH
Confidence            66665554433112332 355555544433   2246677777776665 454443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.91  E-value=8e-07  Score=87.81  Aligned_cols=236  Identities=12%  Similarity=0.036  Sum_probs=187.3

Q ss_pred             cc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHc-CCC---CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHH
Q 015590          161 PS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKL-GVE---IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRT  235 (404)
Q Consensus       161 p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  235 (404)
                      || ...|-..|....+.++.++|.++.+++... ++.   --...|.++++.-..-|.-+...++|+++.+.  .-....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            55 457888899999999999999999998754 111   12357888888888888888999999999875  234567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHH
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN---SASYQEVLYG  312 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~  312 (404)
                      |..|...|.+.+.+++|.++|+.|.++-- -....|...+..+.+..+-+.|..++.+..+.  -|.   .....-.+..
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHH
Confidence            88999999999999999999999987622 36778999999999999999999999998876  343   3344445556


Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH--hHHHHHHhhccCCCCc
Q 015590          313 LLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG--MWREIVGCVTFGKDNR  390 (404)
Q Consensus       313 ~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~  390 (404)
                      -.+.|+.+.+..+|+..... .+--...|+..++.-.++|+.+.++.+|++.+..++.|-..  .|...+..=...|+.+
T Consensus      1610 EFk~GDaeRGRtlfEgll~a-yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~ 1688 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSA-YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEK 1688 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhh-CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchh
Confidence            67889999999999998876 23456789999999999999999999999999988887643  6777776666778888


Q ss_pred             chhhHHHhhhhh
Q 015590          391 NRVYVTETVDSL  402 (404)
Q Consensus       391 ~~~~~~~~~~~~  402 (404)
                      ++++|-..-.++
T Consensus      1689 ~vE~VKarA~EY 1700 (1710)
T KOG1070|consen 1689 NVEYVKARAKEY 1700 (1710)
T ss_pred             hHHHHHHHHHHH
Confidence            888876655443

>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=98.91  E-value=1.4e-07  Score=81.69  Aligned_cols=248  Identities=12%  Similarity=0.064  Sum_probs=129.2

Q ss_pred             HHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCc
Q 015590          100 KLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKL  178 (404)
Q Consensus       100 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  178 (404)
                      -+--.|++..+..-.+ .....  +.... .-.....++.. .|+++.++   .++.... .|.......+...+....+
T Consensus        10 n~fy~G~Y~~~i~e~~-~~~~~--~~~~~e~~~~~~Rs~iA-lg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~   81 (290)
T PF04733_consen   10 NQFYLGNYQQCINEAS-LKSFS--PENKLERDFYQYRSYIA-LGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSD   81 (290)
T ss_dssp             HHHCTT-HHHHCHHHH-CHTST--CHHHHHHHHHHHHHHHH-TT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTT
T ss_pred             HHHHhhhHHHHHHHhh-ccCCC--chhHHHHHHHHHHHHHH-cCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccc
Confidence            3445567776665444 21111  11111 12223344444 66666544   3333222 3555555444443333234


Q ss_pred             HhHHHHHHHHHHHcCCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          179 YGEIQGIYTSAAKLGVE-IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      -+.+..-+++....+.. .+..........+...|++++|+++++.-      .+.......+..|.+.++++.|.+.++
T Consensus        82 ~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~  155 (290)
T PF04733_consen   82 KESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELK  155 (290)
T ss_dssp             HHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHH
Confidence            44444444433333322 22222233334555667777777766543      245555667777777888888888887


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHH----cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 015590          258 RMESEGIDADTVTFNILISGLR----KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER  333 (404)
Q Consensus       258 ~m~~~~~~p~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  333 (404)
                      .|.+.+   +..+...+..++.    ..+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+....+
T Consensus       156 ~~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~  231 (290)
T PF04733_consen  156 NMQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD  231 (290)
T ss_dssp             HHHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-
T ss_pred             HHHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc
Confidence            776542   2233333433332    234577788888887655 34566777777777777788888887777766543


Q ss_pred             CCCCHHHHHHHHHHHHcCCCh-HHHHHHHHHHHH
Q 015590          334 MSPSFVSYKKLIHGLCNQKLV-EDVDWVLKKMVQ  366 (404)
Q Consensus       334 ~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  366 (404)
                       +-+..+...++.+....|+. +.+.+++.++..
T Consensus       232 -~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  232 -PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             -CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             -cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence             33455566666666666766 566677777664

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.

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.90  E-value=4.3e-06  Score=71.26  Aligned_cols=125  Identities=11%  Similarity=0.086  Sum_probs=65.5

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccC---------CCC-------
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLC---------RFS-------  126 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---------~~~-------  126 (404)
                      ..+.+.|++++|+..|.......  .|+...+..|...+--.|.+.+|..+-....+....         ..+       
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~~--~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k~pL~~RLlfhlahklndEk~~~~  142 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNKD--DAPAELGVNLACCKFYLGQYIEAKSIAEKAPKTPLCIRLLFHLAHKLNDEKRILT  142 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhccC--CCCcccchhHHHHHHHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCcHHHHHH
Confidence            35667788888888888775533  566666666665555666777776665543211100         000       


Q ss_pred             --------hHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHH-HHHHhcCcHhHHHHHHHHHHHc
Q 015590          127 --------DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVL-NLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       127 --------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                              ...-.++....+. .-.+++|++++.+....+  |+-...|.-+ -+|.+..-++-+.+++....+.
T Consensus       143 fh~~LqD~~EdqLSLAsvhYm-R~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  143 FHSSLQDTLEDQLSLASVHYM-RMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HHHHHhhhHHHHHhHHHHHHH-HHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence                    0000111111111 334666777776665543  4444444433 3445666666666666655544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.87  E-value=1.8e-05  Score=71.27  Aligned_cols=339  Identities=12%  Similarity=0.116  Sum_probs=204.6

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      ++-|..+|+.||+-+... ..+++.+.++++...  ++-.+..|..-|..-...++++..+.+|.++....    -+...
T Consensus        16 nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~--FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkv----LnlDL   88 (656)
T KOG1914|consen   16 NPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV--FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKV----LNLDL   88 (656)
T ss_pred             CCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc--CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH----hhHhH
Confidence            556899999999887666 899999999999643  57778889999999999999999999999875322    12233


Q ss_pred             HHHHHHHHhh---------------------------------------------------cCCHHHHHHHHhhcccCCC
Q 015590          131 YNVIKIYGNM---------------------------------------------------AGRISKAIETLFDMPSYNC  159 (404)
Q Consensus       131 ~~~l~~~~~~---------------------------------------------------~g~~~~A~~~~~~m~~~~~  159 (404)
                      |.+-..|.++                                                   +.+++...+++.++...-+
T Consensus        89 W~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm  168 (656)
T KOG1914|consen   89 WKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPM  168 (656)
T ss_pred             HHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCcc
Confidence            3333333221                                                   2234455555655544211


Q ss_pred             C------ccHHHHHHHHHHH-------HhcCcHhHHHHHHHHHHHc--CCCCCHh---------------HHHHHH----
Q 015590          160 W------PSVKTFNLVLNLL-------VSAKLYGEIQGIYTSAAKL--GVEIDAC---------------CLNILL----  205 (404)
Q Consensus       160 ~------p~~~~~~~ll~~~-------~~~~~~~~a~~~~~~~~~~--g~~~~~~---------------~~~~li----  205 (404)
                      .      .|-..|..=|+..       -+...+..|.++++++...  |......               .|-.+|    
T Consensus       169 ~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEk  248 (656)
T KOG1914|consen  169 HNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEK  248 (656)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHh
Confidence            0      0111121111111       1234566777777766421  2111100               011111    


Q ss_pred             ---------------------------------------------HHHHhcCCh-------HHHHHHHHHchhCCCCCcH
Q 015590          206 ---------------------------------------------KGLCENGNL-------EAAFYVLDEFPKQNCEPNV  233 (404)
Q Consensus       206 ---------------------------------------------~~~~~~g~~-------~~a~~~~~~~~~~~~~~~~  233 (404)
                                                                   +.+...|+.       +++..+++.....-...+.
T Consensus       249 sNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~  328 (656)
T KOG1914|consen  249 SNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENK  328 (656)
T ss_pred             cCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence                                                         112222222       2333333333221111222


Q ss_pred             HHHHHHHHHHHH---cCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC-ChhhHHH
Q 015590          234 RTYSTLMHGLCE---KGNVEEAFGLLERMESE-GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP-NSASYQE  308 (404)
Q Consensus       234 ~~~~~li~~~~~---~~~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~  308 (404)
                      .+|..+.+---.   .+..+.....++++... ...| ..+|..+++.-.+..-++.|..+|.+..+.+..+ ++..+++
T Consensus       329 ~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A  407 (656)
T KOG1914|consen  329 LLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAA  407 (656)
T ss_pred             HHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHH
Confidence            233322221111   11245555566665543 2333 3567778888888888999999999999887666 6677788


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH--HhHHHHHHhhccC
Q 015590          309 VLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM--GMWREIVGCVTFG  386 (404)
Q Consensus       309 li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~  386 (404)
                      ++.-+| .++.+.|.++|+--.+. ..-++.--...++-+.+.++-..++.+|++....++.||.  ..|..+|.-=..-
T Consensus       408 ~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~v  485 (656)
T KOG1914|consen  408 LMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNV  485 (656)
T ss_pred             HHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhc
Confidence            888665 46788999999876654 3334445566778888889999999999999988666664  4799988877777


Q ss_pred             CCCcchhhHHHhh
Q 015590          387 KDNRNRVYVTETV  399 (404)
Q Consensus       387 ~~~~~~~~~~~~~  399 (404)
                      |+...+..+.+..
T Consensus       486 GdL~si~~lekR~  498 (656)
T KOG1914|consen  486 GDLNSILKLEKRR  498 (656)
T ss_pred             ccHHHHHHHHHHH
Confidence            8888877777654

>PF12854 PPR_1: PPR repeat

Probab=98.87  E-value=3.5e-09  Score=58.87  Aligned_cols=29  Identities=52%  Similarity=1.017  Sum_probs=11.8

Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          230 EPNVRTYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      .||..|||+||.+|++.|++++|.++|++
T Consensus         4 ~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    4 EPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            34444444444444444444444444433

>PF12854 PPR_1: PPR repeat

Probab=98.86  E-value=4e-09  Score=58.63  Aligned_cols=32  Identities=44%  Similarity=0.823  Sum_probs=21.2

Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          263 GIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       263 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      |+.||..||++||.+||+.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56666666666666666666666666666665

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=4.1e-05  Score=69.73  Aligned_cols=318  Identities=18%  Similarity=0.145  Sum_probs=189.6

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      ++.+...+++++|....++.+..  .+-+...+..=+-++.+.++|++|..+.+.-..   .......++.-....++ .
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~--~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~---~~~~~~~~fEKAYc~Yr-l   92 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSI--VPDDEDAIRCKVVALIQLDKYEDALKLIKKNGA---LLVINSFFFEKAYCEYR-L   92 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhc--CCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch---hhhcchhhHHHHHHHHH-c
Confidence            44566778999999999998643  355667777777888899999999866654221   11122222344444555 8


Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCC-------------------------
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI-------------------------  196 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~-------------------------  196 (404)
                      +..++|+..++-...    -|..+...-...+.+.+++++|..+|+.+.+++.+-                         
T Consensus        93 nk~Dealk~~~~~~~----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~  168 (652)
T KOG2376|consen   93 NKLDEALKTLKGLDR----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVP  168 (652)
T ss_pred             ccHHHHHHHHhcccc----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhcc
Confidence            999999999983332    123355555677889999999999999986554211                         


Q ss_pred             --CHhHHHHH---HHHHHhcCChHHHHHHHHHchhC-------C------CCCcHH-HHHHHHHHHHHcCCHHHHHHHHH
Q 015590          197 --DACCLNIL---LKGLCENGNLEAAFYVLDEFPKQ-------N------CEPNVR-TYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       197 --~~~~~~~l---i~~~~~~g~~~~a~~~~~~~~~~-------~------~~~~~~-~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                        ...+|..+   ...+...|++.+|+++++...+.       +      +.-+.. .---+.-.+...|+.++|..++.
T Consensus       169 ~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~  248 (652)
T KOG2376|consen  169 EVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYV  248 (652)
T ss_pred             CCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence              01133333   33466789999999999887221       1      000111 12234556778999999999999


Q ss_pred             HHHHCCCCCCHHH----HHHH-----------------------------------------------HHHHHcCCCHHH
Q 015590          258 RMESEGIDADTVT----FNIL-----------------------------------------------ISGLRKQGKVEE  286 (404)
Q Consensus       258 ~m~~~~~~p~~~~----~~~l-----------------------------------------------i~~~~~~g~~~~  286 (404)
                      ........ |...    -|.|                                               +..|.  +..+.
T Consensus       249 ~~i~~~~~-D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q  325 (652)
T KOG2376|consen  249 DIIKRNPA-DEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT--NKMDQ  325 (652)
T ss_pred             HHHHhcCC-CchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHH
Confidence            88876432 2211    1111                                               11111  11122


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhc--CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHH--
Q 015590          287 GMKLLERMKGKGCYPNSASYQEVLYGLLDK--KRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLK--  362 (404)
Q Consensus       287 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~--  362 (404)
                      +.++-....  +..|. ..+.+++..+.+.  ....++.+++...-+....-.....-.++......|+++.|.+++.  
T Consensus       326 ~r~~~a~lp--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~  402 (652)
T KOG2376|consen  326 VRELSASLP--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLF  402 (652)
T ss_pred             HHHHHHhCC--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            222211111  11233 3344444443322  2467777777777665322234566667788889999999999999  


Q ss_pred             ------HHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHH
Q 015590          363 ------KMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTE  397 (404)
Q Consensus       363 ------~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~  397 (404)
                            .+.+.+..|..  ...++.-+.+.++.+.+..++.
T Consensus       403 ~~~~~ss~~~~~~~P~~--V~aiv~l~~~~~~~~~a~~vl~  441 (652)
T KOG2376|consen  403 LESWKSSILEAKHLPGT--VGAIVALYYKIKDNDSASAVLD  441 (652)
T ss_pred             hhhhhhhhhhhccChhH--HHHHHHHHHhccCCccHHHHHH
Confidence                  66655555554  4455566667676666655543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.80  E-value=4.3e-05  Score=70.30  Aligned_cols=340  Identities=12%  Similarity=0.062  Sum_probs=200.4

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCC----------------------chHHHH
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKR----------------------FDAIED  112 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~----------------------~~~a~~  112 (404)
                      .+.|++|-.-|.+.|.++.|.++|++.++.   ..+..-|+.+.++|+....                      ++....
T Consensus       248 g~Lw~SLAdYYIr~g~~ekarDvyeeai~~---v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a  324 (835)
T KOG2047|consen  248 GFLWCSLADYYIRSGLFEKARDVYEEAIQT---VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMA  324 (835)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHh---heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHH
Confidence            346888888888899999999998888754   3344555555555553211                      122222


Q ss_pred             HHHHHHhcccCCCChHH-------HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc------HHHHHHHHHHHHhcCcH
Q 015590          113 IMQRIKVEKLCRFSDGF-------FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS------VKTFNLVLNLLVSAKLY  179 (404)
Q Consensus       113 ~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~------~~~~~~ll~~~~~~~~~  179 (404)
                      .|+.+........++..       +..-+.......|+..+-...|.+.... +.|.      ...|..+.+.|-..|+.
T Consensus       325 ~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l  403 (835)
T KOG2047|consen  325 RFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDL  403 (835)
T ss_pred             HHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcH
Confidence            33333222211011100       0000111111146666666666665431 1121      24688889999999999


Q ss_pred             hHHHHHHHHHHHcCCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHchhCC-----------CC------CcHHHHHHH
Q 015590          180 GEIQGIYTSAAKLGVEID---ACCLNILLKGLCENGNLEAAFYVLDEFPKQN-----------CE------PNVRTYSTL  239 (404)
Q Consensus       180 ~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----------~~------~~~~~~~~l  239 (404)
                      +.|..+|++..+-..+--   ..+|.....+=.+..+++.|+++.+.....-           .+      .+...|...
T Consensus       404 ~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y  483 (835)
T KOG2047|consen  404 DDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMY  483 (835)
T ss_pred             HHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHH
Confidence            999999999887654322   4567777777777888999999888765321           11      123456677


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh-hhHHHHHHHHHhc--
Q 015590          240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS-ASYQEVLYGLLDK--  316 (404)
Q Consensus       240 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~--  316 (404)
                      ++.--..|-++....+|+++.+..+- ++..-......+..+.-++++.++|++-...=..|+. ..|+..+.-+.+.  
T Consensus       484 ~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ryg  562 (835)
T KOG2047|consen  484 ADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYG  562 (835)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhc
Confidence            77777788888899999998877554 3333222333344556678888888766555223444 4666666655543  


Q ss_pred             -CChhHHHHHHHHHHHCCCCCCHHHHHHHH--HHHHcCCChHHHHHHHHHHHHCCCCCCH--HhHHHHHH-hhccCCCCc
Q 015590          317 -KRFPEAKELVGRMICERMSPSFVSYKKLI--HGLCNQKLVEDVDWVLKKMVQQGFVPRM--GMWREIVG-CVTFGKDNR  390 (404)
Q Consensus       317 -g~~~~a~~~~~~~~~~~~~p~~~~~~~li--~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~-~~~~~~~~~  390 (404)
                       ..++.|..+|++..+ |.+|...-+--++  ..=-+.|....|+.++++... ++.+..  ..|+..|. +-..-|-..
T Consensus       563 g~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~  640 (835)
T KOG2047|consen  563 GTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPR  640 (835)
T ss_pred             CCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcc
Confidence             468899999999988 5665443222222  222346888888888888654 344432  35776665 333445544


Q ss_pred             chhhHHHhhhh
Q 015590          391 NRVYVTETVDS  401 (404)
Q Consensus       391 ~~~~~~~~~~~  401 (404)
                      ......+.|++
T Consensus       641 TR~iYekaIe~  651 (835)
T KOG2047|consen  641 TREIYEKAIES  651 (835)
T ss_pred             cHHHHHHHHHh
Confidence            44444444443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.76  E-value=4.6e-05  Score=70.15  Aligned_cols=194  Identities=13%  Similarity=0.040  Sum_probs=108.4

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKA  147 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  147 (404)
                      .|+-++|....+..++.  -..+.+.|..+.-.+....++++|.+.|..+...+   +++..++.=+..+-.+.++++..
T Consensus        54 lg~~~ea~~~vr~glr~--d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~---~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   54 LGKKEEAYELVRLGLRN--DLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE---KDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             ccchHHHHHHHHHHhcc--CcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC---CCcHHHHHHHHHHHHHHHhhhhH
Confidence            35555555555555432  23345555555555555556666666666554433   44444444333333335555555


Q ss_pred             HHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-CCCHhHHHHHH------HHHHhcCChHHHHH
Q 015590          148 IETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-EIDACCLNILL------KGLCENGNLEAAFY  219 (404)
Q Consensus       148 ~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li------~~~~~~g~~~~a~~  219 (404)
                      .....++.+..  |+ ...|.....+..-.|++..|..+.++..+... .|+...+.-..      ....+.|..++|.+
T Consensus       129 ~~tr~~LLql~--~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale  206 (700)
T KOG1156|consen  129 LETRNQLLQLR--PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALE  206 (700)
T ss_pred             HHHHHHHHHhh--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHH
Confidence            55555544432  32 23556666666667777777777777766542 35554443322      23445566677766


Q ss_pred             HHHHchhCCCCCcHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 015590          220 VLDEFPKQNCEPNVRTY-STLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFN  272 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~  272 (404)
                      .+..-...  ..|...+ -.-...+.+.+++++|..++..+...  .||...|.
T Consensus       207 ~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy  256 (700)
T KOG1156|consen  207 HLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYY  256 (700)
T ss_pred             HHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHH
Confidence            66554432  2222222 23456678889999999999999887  56665553

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

Probab=98.74  E-value=1.5e-05  Score=69.44  Aligned_cols=267  Identities=12%  Similarity=0.051  Sum_probs=191.0

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCH-HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNE-ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY  131 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  131 (404)
                      .|+.....+-..+...|+.++|...|++..-   +.|+. .....-.-.+.+.|+++....+...+-...  ..+...+.
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~---~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~--~~ta~~wf  304 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLC---ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV--KYTASHWF  304 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhh---CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh--hcchhhhh
Confidence            3555667788899999999999999999853   23433 223333334567888888888777764332  12223333


Q ss_pred             HHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          132 NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       132 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      ......+. ..+++.|+.+-++-.+.+ +.+...|-.-.+.+...++.++|.=.|+...... |.+...|.-|+..|...
T Consensus       305 V~~~~l~~-~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  305 VHAQLLYD-EKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhh-hhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhh
Confidence            33333444 689999999999887754 2344566666678889999999999999988765 67889999999999999


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHH-HHHH-HcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHHHH
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLM-HGLC-EKGNVEEAFGLLERMESEGIDAD-TVTFNILISGLRKQGKVEEGM  288 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li-~~~~-~~~~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~  288 (404)
                      |.+.+|.-.-++....= +.+..+.+.+. ..+. ....-++|..++++-...  .|+ ....+.+...+...|..+.+.
T Consensus       382 ~~~kEA~~~An~~~~~~-~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i  458 (564)
T KOG1174|consen  382 KRFKEANALANWTIRLF-QNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDII  458 (564)
T ss_pred             chHHHHHHHHHHHHHHh-hcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHH
Confidence            99999877665543321 23444444331 2222 122347788888776654  454 334566777788899999999


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          289 KLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       289 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      .++++....  .||....+.|.+.+...+.+.+|++.|......
T Consensus       459 ~LLe~~L~~--~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  459 KLLEKHLII--FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHHHHhh--ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            999998877  789999999999999999999999999988764

>PLN02789 farnesyltranstransferase

Probab=98.73  E-value=2e-05  Score=69.27  Aligned_cols=181  Identities=12%  Similarity=0.039  Sum_probs=77.7

Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCCh--HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNL--EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLL  256 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~--~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  256 (404)
                      +++++..++.+.+.. +.+..+|+..--.+.+.|+.  +++...++.+.+.. +.|..+|+.....+...|+++++++.+
T Consensus        88 l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         88 LEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             HHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            344444444444332 22333333333333333331  33444444444433 344445555544555555555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcC---CC----HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc----CChhHHHHH
Q 015590          257 ERMESEGIDADTVTFNILISGLRKQ---GK----VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK----KRFPEAKEL  325 (404)
Q Consensus       257 ~~m~~~~~~p~~~~~~~li~~~~~~---g~----~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~a~~~  325 (404)
                      +++.+.++. |...|+.....+.+.   |.    .++......++.... +-|...|+-+...+...    +...+|.++
T Consensus       166 ~~~I~~d~~-N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        166 HQLLEEDVR-NNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             HHHHHHCCC-chhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            555444333 334444333333222   11    123444443444332 11334444444444442    223345555


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCC------------------ChHHHHHHHHHH
Q 015590          326 VGRMICERMSPSFVSYKKLIHGLCNQK------------------LVEDVDWVLKKM  364 (404)
Q Consensus       326 ~~~~~~~~~~p~~~~~~~li~~~~~~g------------------~~~~a~~~~~~m  364 (404)
                      +.+....+ ..+......|++.|+...                  ..++|.++++.+
T Consensus       244 ~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        244 CLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             HHHhhccc-CCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHH
Confidence            55544322 234445555555555421                  236677777777

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.72  E-value=3.5e-06  Score=71.57  Aligned_cols=186  Identities=9%  Similarity=-0.001  Sum_probs=123.3

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH---hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHH---
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA---CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVR---  234 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---  234 (404)
                      .....+..+...+.+.|++++|...++++.+.. +.+.   .++..+..++.+.|++++|...++.+.+.. +.+..   
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchHH
Confidence            345677778888889999999999999887763 2222   466778888899999999999999887653 21222   


Q ss_pred             HHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhH
Q 015590          235 TYSTLMHGLCEK--------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASY  306 (404)
Q Consensus       235 ~~~~li~~~~~~--------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  306 (404)
                      ++..+..++.+.        |++++|.+.|+.+...... +...+..+.....    ...      ..        ....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~------~~--------~~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRN------RL--------AGKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHH------HH--------HHHH
Confidence            344555555544        6778888888888766322 2222222211100    000      00        0111


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICERM--SPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ..+...+.+.|++++|...++...+...  +.....+..+..++.+.|++++|..+++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            2455668888999999999999887521  223567888889999999999999988888643

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=98.72  E-value=1.7e-05  Score=69.75  Aligned_cols=212  Identities=8%  Similarity=0.016  Sum_probs=114.5

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHhcccCCCChHHHHHHHHHH
Q 015590           59 TEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAK-RFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIY  137 (404)
Q Consensus        59 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  137 (404)
                      +.+-..+...+..++|+.+.+++++..  +-+..+|+..-.++...| +++++...++.+....   |.+...|+--...
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n---pknyqaW~~R~~~  115 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN---PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC---CcchHHhHHHHHH
Confidence            344445555667777777777776542  223334555555555555 4677777777766544   3343344433222


Q ss_pred             HhhcCC--HHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc---C
Q 015590          138 GNMAGR--ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN---G  212 (404)
Q Consensus       138 ~~~~g~--~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~---g  212 (404)
                      ..+.|+  .++++.+++++.+.+ +-|..+|+...-++.+.|+++++++.++++++.+ +.+..+|+.....+.+.   |
T Consensus       116 l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccc
Confidence            222343  256666776666654 2345667766666667777777777777777665 44555665555544443   2


Q ss_pred             Ch----HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          213 NL----EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK----GNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       213 ~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      ..    +........+.... +-|..+|+-+...+...    +...+|...+.+....++. +......|+..|+
T Consensus       194 ~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~-s~~al~~l~d~~~  266 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSN-HVFALSDLLDLLC  266 (320)
T ss_pred             cccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCC-cHHHHHHHHHHHH
Confidence            22    23444444444443 45556666666655552    2234455555554443222 4444555555554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.69  E-value=4.4e-06  Score=77.73  Aligned_cols=207  Identities=15%  Similarity=0.210  Sum_probs=111.2

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc------------------
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK------------------  121 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~------------------  121 (404)
                      +.|+.|.+.|.|..|.+.-..-   ..+..|......+..++.+..-+++|-++|+.+..-+                  
T Consensus       620 aaiqlyika~~p~~a~~~a~n~---~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaiel  696 (1636)
T KOG3616|consen  620 AAIQLYIKAGKPAKAARAALND---EELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIEL  696 (1636)
T ss_pred             HHHHHHHHcCCchHHHHhhcCH---HHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHH
Confidence            4688899999998887654322   2235566666666666666655666666665543110                  


Q ss_pred             -cCCCChH--HHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH
Q 015590          122 -LCRFSDG--FFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA  198 (404)
Q Consensus       122 -~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~  198 (404)
                       ....|..  .............|+++.|...|-+..         ...-.+.+....++|.+|+.+++.+....  .-.
T Consensus       697 arfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--~~s  765 (1636)
T KOG3616|consen  697 ARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--TAS  765 (1636)
T ss_pred             HHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--ccc
Confidence             0000000  000011111111333333333332211         11122334455667777777777776553  233


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL  278 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  278 (404)
                      .-|..+.+.|+..|+++.|+++|.+.-         .++--|..|.++|+|++|.++-.+..  |.......|.+-..-+
T Consensus       766 ~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedl  834 (1636)
T KOG3616|consen  766 GYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDL  834 (1636)
T ss_pred             ccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhH
Confidence            456667777888888888887776543         23445677788888888777755442  3344445555545555


Q ss_pred             HcCCCHHHHHHHH
Q 015590          279 RKQGKVEEGMKLL  291 (404)
Q Consensus       279 ~~~g~~~~a~~~~  291 (404)
                      -+.|++.+|+++|
T Consensus       835 dehgkf~eaeqly  847 (1636)
T KOG3616|consen  835 DEHGKFAEAEQLY  847 (1636)
T ss_pred             Hhhcchhhhhhee
Confidence            5566665555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.68  E-value=0.00011  Score=75.55  Aligned_cols=308  Identities=12%  Similarity=0.067  Sum_probs=192.1

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCC-----CCCH--HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCC--hHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDY-----NPNE--ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS--DGFF  130 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~-----~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~  130 (404)
                      .....+...|++++|...+........-     .+..  .....+...+...|++++|...++...........  ....
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            3344556778999999988877543111     1111  12222334556889999999999887643111111  1122


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccC----CCC-ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc----CCC---CCH
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSY----NCW-PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL----GVE---IDA  198 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~---~~~  198 (404)
                      .+.+.......|++++|...+.+....    |-. +...++..+...+...|++++|...+++....    +..   ...
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            233333333489999999998877541    210 11234556667788899999999998876653    221   123


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhC----CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHH--
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA-DTVTF--  271 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p-~~~~~--  271 (404)
                      ..+..+...+...|++++|...+.+....    +.......+..+...+...|+.++|...+.+........ ....+  
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            34555666778889999999998876542    111123445556677888999999999998875421110 11111  


Q ss_pred             ---HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHH
Q 015590          272 ---NILISGLRKQGKVEEGMKLLERMKGKGCYPN---SASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPS-FVS  340 (404)
Q Consensus       272 ---~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~  340 (404)
                         ...+..+...|+.+.|..++...........   ...+..+..++...|+.++|...+++....    |..++ ..+
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~  733 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRN  733 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHH
Confidence               1122445568999999999877654321111   111345666788889999999999987653    32222 245


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          341 YKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ...+..++...|+.++|...+.+..+.
T Consensus       734 ~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        734 LILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            566667888999999999999988865

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.68  E-value=4.7e-06  Score=70.77  Aligned_cols=184  Identities=10%  Similarity=-0.014  Sum_probs=127.1

Q ss_pred             ChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc-H---HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHh--
Q 015590          126 SDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS-V---KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDAC--  199 (404)
Q Consensus       126 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~--  199 (404)
                      .....+.....+.. .|++++|...|+++....  |+ .   .++..+..++.+.|++++|...++.+.+.. +.+..  
T Consensus        32 ~~~~~~~~g~~~~~-~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~  107 (235)
T TIGR03302        32 PAEELYEEAKEALD-SGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH-PNHPDAD  107 (235)
T ss_pred             CHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC-cCCCchH
Confidence            34556666677776 899999999999987754  43 2   467788899999999999999999998864 22222  


Q ss_pred             -HHHHHHHHHHhc--------CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 015590          200 -CLNILLKGLCEN--------GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVT  270 (404)
Q Consensus       200 -~~~~li~~~~~~--------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~  270 (404)
                       ++..+..++...        |++++|.+.|+.+.+.. +.+...+..+.....    ...      ...        ..
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~~~~----~~~------~~~--------~~  168 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY-PNSEYAPDAKKRMDY----LRN------RLA--------GK  168 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC-CCChhHHHHHHHHHH----HHH------HHH--------HH
Confidence             455666666655        78899999999998763 223333332221111    000      000        01


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          271 FNILISGLRKQGKVEEGMKLLERMKGKGC--YPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       271 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      ...+...|.+.|++++|...+++..+...  ......+..+..++...|++++|..+++.+...
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            12455668888999999999998887621  223467888888999999999999988887654

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).

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.66  E-value=1.5e-05  Score=79.15  Aligned_cols=251  Identities=14%  Similarity=0.017  Sum_probs=164.7

Q ss_pred             ChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh--HHHHHHHHHHHhhcCCHHHH
Q 015590           70 DPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD--GFFYNVIKIYGNMAGRISKA  147 (404)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A  147 (404)
                      .|+.|-++-+.. +..  |-+...|-.-|......++.++|+++.+++...-.....+  .-.|..+..+-..-|.-+..
T Consensus      1440 ~pesaeDferlv-rss--PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl 1516 (1710)
T KOG1070|consen 1440 APESAEDFERLV-RSS--PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESL 1516 (1710)
T ss_pred             CCcCHHHHHHHH-hcC--CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHH
Confidence            344555544444 321  3345677777777788888888888888765332111111  12333333333335667778


Q ss_pred             HHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          148 IETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       148 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      .++|++..+..  -.-..|..|...|.+.+.+++|.++++.|.+.- .-...+|...+..+.+..+-+.|..++.+..+.
T Consensus      1517 ~kVFeRAcqyc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~ 1593 (1710)
T KOG1070|consen 1517 KKVFERACQYC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS 1593 (1710)
T ss_pred             HHHHHHHHHhc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh
Confidence            88888877642  123467778888888888888888888887652 356678888888888888888888888876654


Q ss_pred             CCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh--
Q 015590          228 NCEP--NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS--  303 (404)
Q Consensus       228 ~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--  303 (404)
                      = +.  ......-.+..-.+.|+.+.+..+|+......++ -...|+..+++-.+.|+.+.++.+|++....++.|..  
T Consensus      1594 l-Pk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmK 1671 (1710)
T KOG1070|consen 1594 L-PKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMK 1671 (1710)
T ss_pred             c-chhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhH
Confidence            2 22  2334445555667788888888888888766444 4567888888888888888888888888888766653  


Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          304 ASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       304 ~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      ..|.-.+..--..|+-+.++.+=.+
T Consensus      1672 fffKkwLeyEk~~Gde~~vE~VKar 1696 (1710)
T KOG1070|consen 1672 FFFKKWLEYEKSHGDEKNVEYVKAR 1696 (1710)
T ss_pred             HHHHHHHHHHHhcCchhhHHHHHHH
Confidence            5666777666666765544444333

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.64  E-value=1.3e-05  Score=65.68  Aligned_cols=119  Identities=10%  Similarity=0.100  Sum_probs=65.9

Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHcCCC--HHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISG-LRKQGK--VEEG  287 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~--~~~a  287 (404)
                      .++.+++...++...+.+ +.|...|..+...|...|++++|...|++..+.... +...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            344455555555544444 555566666666666666666666666666555332 44455555544 244444  3666


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       288 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      .+++++..+.+.. +...+..+...+.+.|++++|+..|+++.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            6666666655322 4455555555666666666666666666554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.63  E-value=0.00039  Score=63.63  Aligned_cols=311  Identities=15%  Similarity=0.121  Sum_probs=178.1

Q ss_pred             HhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccC---------------------
Q 015590           65 FSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLC---------------------  123 (404)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~---------------------  123 (404)
                      ..+.+.+++|+..++-. .    +.|..+...-...+.+.|++++|.++|+.+.+....                     
T Consensus        89 ~Yrlnk~Dealk~~~~~-~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~  163 (652)
T KOG2376|consen   89 EYRLNKLDEALKTLKGL-D----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQL  163 (652)
T ss_pred             HHHcccHHHHHHHHhcc-c----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHH
Confidence            34567788888877733 1    223446666667778888888888888877433210                     


Q ss_pred             -------CC-ChHHHHHHHHHHHhhcCCHHHHHHHHhhcc--------cCC-----CCccHH-HHHHHHHHHHhcCcHhH
Q 015590          124 -------RF-SDGFFYNVIKIYGNMAGRISKAIETLFDMP--------SYN-----CWPSVK-TFNLVLNLLVSAKLYGE  181 (404)
Q Consensus       124 -------~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~--------~~~-----~~p~~~-~~~~ll~~~~~~~~~~~  181 (404)
                             +. +-..++|.--.+.. .|++.+|+++++...        +.+     +.-... .-..+.-.+...|+..+
T Consensus       164 ~q~v~~v~e~syel~yN~Ac~~i~-~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  164 LQSVPEVPEDSYELLYNTACILIE-NGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHhccCCCcchHHHHHHHHHHHHh-cccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence                   00 11223444444444 899999999998771        111     111111 11223445667899999


Q ss_pred             HHHHHHHHHHcCCCCCHhH----HHHHHHHHHhc---------------------------------------------C
Q 015590          182 IQGIYTSAAKLGVEIDACC----LNILLKGLCEN---------------------------------------------G  212 (404)
Q Consensus       182 a~~~~~~~~~~g~~~~~~~----~~~li~~~~~~---------------------------------------------g  212 (404)
                      |.++|...++.. ++|...    -|.|+.+-...                                             +
T Consensus       243 a~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tn  321 (652)
T KOG2376|consen  243 ASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTN  321 (652)
T ss_pred             HHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            999999988775 444321    12222111000                                             1


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE--KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      ..+.+.++-......  .| ...+..++..+.+  .....+|..++...-+....-.....-..+......|+++.|.++
T Consensus       322 k~~q~r~~~a~lp~~--~p-~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~i  398 (652)
T KOG2376|consen  322 KMDQVRELSASLPGM--SP-ESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEI  398 (652)
T ss_pred             hHHHHHHHHHhCCcc--Cc-hHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence            111111111111110  11 2233334433322  224566777776666553332344555667777889999999999


Q ss_pred             HH--------HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCCHHHHHHH----HHHHHcCCChHH
Q 015590          291 LE--------RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE--RMSPSFVSYKKL----IHGLCNQKLVED  356 (404)
Q Consensus       291 ~~--------~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~l----i~~~~~~g~~~~  356 (404)
                      +.        .+.+.+..|  .+...+...+.+.++-+.|..++.+....  .-.+......++    ...-.+.|+-++
T Consensus       399 l~~~~~~~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~e  476 (652)
T KOG2376|consen  399 LSLFLESWKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEE  476 (652)
T ss_pred             HHHHhhhhhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHH
Confidence            99        555555555  45556677778888877777777766542  112222333333    333446799999


Q ss_pred             HHHHHHHHHHCCCCCCHHhHHHHHHhhccCCC
Q 015590          357 VDWVLKKMVQQGFVPRMGMWREIVGCVTFGKD  388 (404)
Q Consensus       357 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  388 (404)
                      |..+++++.+. ..+|..+...++.+|..-+.
T Consensus       477 a~s~leel~k~-n~~d~~~l~~lV~a~~~~d~  507 (652)
T KOG2376|consen  477 ASSLLEELVKF-NPNDTDLLVQLVTAYARLDP  507 (652)
T ss_pred             HHHHHHHHHHh-CCchHHHHHHHHHHHHhcCH
Confidence            99999999964 44677788888888876543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.63  E-value=4e-06  Score=77.93  Aligned_cols=223  Identities=17%  Similarity=0.117  Sum_probs=157.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHH
Q 015590           87 YNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTF  166 (404)
Q Consensus        87 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  166 (404)
                      ++|--..-..+...+...|-...|..+++++.          .+...+..|+. .|+..+|..+..+..+.  +||+..|
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle----------mw~~vi~CY~~-lg~~~kaeei~~q~lek--~~d~~ly  460 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE----------MWDPVILCYLL-LGQHGKAEEINRQELEK--DPDPRLY  460 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH----------HHHHHHHHHHH-hcccchHHHHHHHHhcC--CCcchhH
Confidence            34444445566677778888888888888753          23456666666 78888888888877763  4788888


Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK  246 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  246 (404)
                      ..+.+......-+++|.++.++....       .-..+.....+.++++++.+.|+.-.+.+ +.-..+|-..--+..+.
T Consensus       461 c~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALql  532 (777)
T KOG1128|consen  461 CLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQL  532 (777)
T ss_pred             HHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHH
Confidence            88888877777788888887765433       11122222233677888888887766554 55667777777777888


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHH
Q 015590          247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELV  326 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  326 (404)
                      ++++.|.+.|.......+. +...||.+-.+|.+.|+..+|...+.+..+.+ .-+...|...+....+.|.++.|.+.+
T Consensus       533 ek~q~av~aF~rcvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  533 EKEQAAVKAFHRCVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             hhhHHHHHHHHHHhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHH
Confidence            8888888888777654222 45678888888888888888888888888776 335566777777778888888888888


Q ss_pred             HHHHHC
Q 015590          327 GRMICE  332 (404)
Q Consensus       327 ~~~~~~  332 (404)
                      .++.+.
T Consensus       611 ~rll~~  616 (777)
T KOG1128|consen  611 HRLLDL  616 (777)
T ss_pred             HHHHHh
Confidence            777643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.62  E-value=0.00013  Score=74.91  Aligned_cols=306  Identities=9%  Similarity=-0.002  Sum_probs=180.1

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCC----CC--hHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc----HHH
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCR----FS--DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS----VKT  165 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~  165 (404)
                      .....+...|+++++..++......-...    ++  ...........+...|++++|...+++....-...+    ...
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            33445567788888888887764321000    00  111222222333348899999998887654211111    124


Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCC---CC--CHhHHHHHHHHHHhcCChHHHHHHHHHchh----CCCC--C-cH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGV---EI--DACCLNILLKGLCENGNLEAAFYVLDEFPK----QNCE--P-NV  233 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~---~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~--~-~~  233 (404)
                      .+.+...+...|++++|...+++.....-   .+  ...+...+...+...|+++.|...+++...    .+..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            45566667788999999998888764311   11  123455667778889999999888877543    2211  1 22


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC-CCChhhH--
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESE--GIDA--DTVTFNILISGLRKQGKVEEGMKLLERMKGKGC-YPNSASY--  306 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~--~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~--  306 (404)
                      ..+..+...+...|++++|...+.+....  ...+  ....+..+...+...|+.++|.+.+........ ......+  
T Consensus       574 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~  653 (903)
T PRK04841        574 FLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIA  653 (903)
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhh
Confidence            33455566677789999999888876542  1112  233445566677788999999988888754210 0011111  


Q ss_pred             ---HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHcCCChHHHHHHHHHHHHC----CCCCCH-Hh
Q 015590          307 ---QEVLYGLLDKKRFPEAKELVGRMICERMSPSF---VSYKKLIHGLCNQKLVEDVDWVLKKMVQQ----GFVPRM-GM  375 (404)
Q Consensus       307 ---~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~  375 (404)
                         ...+..+...|+.+.|.+.+............   ..+..+..++...|+.++|...+++....    |..++. .+
T Consensus       654 ~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~  733 (903)
T PRK04841        654 NADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRN  733 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHH
Confidence               11223445578888888887775532111111   11345667788999999999999987753    333322 23


Q ss_pred             HHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          376 WREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       376 ~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      +..+-.++...|+.+.+...++..-.
T Consensus       734 ~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        734 LILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444566677877776655554433

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.62  E-value=6.2e-06  Score=76.74  Aligned_cols=231  Identities=12%  Similarity=0.076  Sum_probs=175.4

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN  139 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  139 (404)
                      .+-..+...|-...|+.+|++.          +.|.-+|..|+..|+-.+|..+..+-.+.    +++..+|.++..+..
T Consensus       403 ~laell~slGitksAl~I~Erl----------emw~~vi~CY~~lg~~~kaeei~~q~lek----~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERL----------EMWDPVILCYLLLGQHGKAEEINRQELEK----DPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhH----------HHHHHHHHHHHHhcccchHHHHHHHHhcC----CCcchhHHHhhhhcc
Confidence            4556788889999999999976          34777899999999999999998876542    466777777776666


Q ss_pred             hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .---+++|.++++....       ..-..+.....+.++++++.+.++.-.+.. +....+|-.+..++.++++++.|.+
T Consensus       469 d~s~yEkawElsn~~sa-------rA~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~  540 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISA-------RAQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVK  540 (777)
T ss_pred             ChHHHHHHHHHhhhhhH-------HHHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHH
Confidence            56668889888877543       222223333345789999999998887765 5667788888999999999999999


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-C
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK-G  298 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~  298 (404)
                      .|..-.... +-+..+||.+-.+|.+.++-.+|...+.+..+.+.. +...|...+-...+.|.+++|.+.+.++.+. .
T Consensus       541 aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll~~~~  618 (777)
T KOG1128|consen  541 AFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRK  618 (777)
T ss_pred             HHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHHHhhh
Confidence            998877653 556778999999999999999999999999887633 5667777777788999999999999888654 1


Q ss_pred             CCCChhhHHHHHHHHH
Q 015590          299 CYPNSASYQEVLYGLL  314 (404)
Q Consensus       299 ~~p~~~~~~~li~~~~  314 (404)
                      ...|..+...++....
T Consensus       619 ~~~d~~vl~~iv~~~~  634 (777)
T KOG1128|consen  619 KYKDDEVLLIIVRTVL  634 (777)
T ss_pred             hcccchhhHHHHHHHH
Confidence            1225555555554443

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

Probab=98.59  E-value=0.00026  Score=66.75  Aligned_cols=203  Identities=10%  Similarity=-0.036  Sum_probs=121.1

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHH
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV  133 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  133 (404)
                      |...|..+--++.+.|+++.+.+.|++.+.  +.--..+.|..+...+...|.-..|..+++...... ..|++.....+
T Consensus       322 d~ai~d~Lt~al~~~g~f~~lae~fE~~~~--~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~-~~ps~~s~~Lm  398 (799)
T KOG4162|consen  322 DAAIFDHLTFALSRCGQFEVLAEQFEQALP--FSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKS-EQPSDISVLLM  398 (799)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhH--hhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccc-cCCCcchHHHH
Confidence            444555666677777888888888888753  334566778888888888888888888887754332 12334444443


Q ss_pred             HHHHH-hhcCCHHHHHHHHhhccc--CCC--CccHHHHHHHHHHHHh-----------cCcHhHHHHHHHHHHHcCCCCC
Q 015590          134 IKIYG-NMAGRISKAIETLFDMPS--YNC--WPSVKTFNLVLNLLVS-----------AKLYGEIQGIYTSAAKLGVEID  197 (404)
Q Consensus       134 l~~~~-~~~g~~~~A~~~~~~m~~--~~~--~p~~~~~~~ll~~~~~-----------~~~~~~a~~~~~~~~~~g~~~~  197 (404)
                      ....| ..-+.++++++.-.+..+  .+.  ......|-.+.-+|..           .....++.+.+++..+.+ +.|
T Consensus       399 asklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~d  477 (799)
T KOG4162|consen  399 ASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTD  477 (799)
T ss_pred             HHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCC
Confidence            33333 334555555555544433  110  0122334444333322           112346666777776654 333


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ..+.-.+---|+..++++.|.....+..+.+-.-+...|..+.-.+...+++.+|+.+.+...
T Consensus       478 p~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al  540 (799)
T KOG4162|consen  478 PLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAAL  540 (799)
T ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            333334445567777888888888777776546677778777777777777777777765543

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.59  E-value=3.3e-05  Score=75.85  Aligned_cols=241  Identities=7%  Similarity=0.037  Sum_probs=149.9

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      ++.+.-.|..|+..+.+.+++++|+++.+..++..+-.  ...|..+...+.+.++.+.+..+  .+             
T Consensus        27 ~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~--i~~yy~~G~l~~q~~~~~~~~lv--~~-------------   89 (906)
T PRK14720         27 SLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKS--ISALYISGILSLSRRPLNDSNLL--NL-------------   89 (906)
T ss_pred             CcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcc--eehHHHHHHHHHhhcchhhhhhh--hh-------------
Confidence            34455667788888888888888888888776543222  22333333355566665555444  21             


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                         +..+-. ..++..+..+...|.+.+  -+...+..+..+|-+.|+.+++.++|+++.+.. +-|..+.|.+...|+.
T Consensus        90 ---l~~~~~-~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae  162 (906)
T PRK14720         90 ---IDSFSQ-NLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEE  162 (906)
T ss_pred             ---hhhccc-ccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHH
Confidence               111211 333433333334444432  344577778888888888888888888888877 6678888888888888


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      . ++++|+.++......               |...+++.++..++.++....  |+               +.+.-.++
T Consensus       163 ~-dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~--~~---------------d~d~f~~i  209 (906)
T PRK14720        163 E-DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN--SD---------------DFDFFLRI  209 (906)
T ss_pred             h-hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC--cc---------------cchHHHHH
Confidence            8 888888887776643               566677788888888777662  22               12222333


Q ss_pred             HHHHhhC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          291 LERMKGK-GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLC  349 (404)
Q Consensus       291 ~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  349 (404)
                      .+.+... |..--..++-.+-..|...++++++..++..+.+.. +-|.....-++.+|.
T Consensus       210 ~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        210 ERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            3333333 223334556666677777788888888888888763 335555566666665

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.59  E-value=9.5e-06  Score=73.58  Aligned_cols=218  Identities=14%  Similarity=0.059  Sum_probs=108.1

Q ss_pred             HHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH-HHHHHHhhcC
Q 015590           64 IFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN-VIKIYGNMAG  142 (404)
Q Consensus        64 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g  142 (404)
                      -+.+.|+..+|.-.|+...++.  |.+...|..|...-+..++=..|+..++++.+.+   |++..... +...|.. .|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld---P~NleaLmaLAVSytN-eg  367 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELD---PTNLEALMALAVSYTN-EG  367 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC---CccHHHHHHHHHHHhh-hh
Confidence            3455666777777777766543  4456667777666666666666666666665544   34433333 3333333 56


Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHH---------HHHHhcCcHhHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhcC
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVL---------NLLVSAKLYGEIQGIYTSAAK-LGVEIDACCLNILLKGLCENG  212 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll---------~~~~~~~~~~~a~~~~~~~~~-~g~~~~~~~~~~li~~~~~~g  212 (404)
                      .-..|++.++.-....  |. ..|...-         ..+..........++|-++.. .+..+|..+...|.-.|--.|
T Consensus       368 ~q~~Al~~L~~Wi~~~--p~-y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~  444 (579)
T KOG1125|consen  368 LQNQALKMLDKWIRNK--PK-YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG  444 (579)
T ss_pred             hHHHHHHHHHHHHHhC--cc-chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch
Confidence            6666666666543211  00 0000000         111111222333334433332 232345555555555555555


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCCHHHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADT-VTFNILISGLRKQGKVEEGMKLL  291 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~  291 (404)
                      ++++|...|+...... |-|...||-|...++...+.++|+..|.+..+.  +|+- .....|.-.|...|.+++|...|
T Consensus       445 efdraiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hl  521 (579)
T KOG1125|consen  445 EFDRAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHL  521 (579)
T ss_pred             HHHHHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHH
Confidence            6666666655555443 445555665555555555556666665555554  2321 12223444455555555555554


Q ss_pred             HH
Q 015590          292 ER  293 (404)
Q Consensus       292 ~~  293 (404)
                      -.
T Consensus       522 L~  523 (579)
T KOG1125|consen  522 LE  523 (579)
T ss_pred             HH
Confidence            43

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.58  E-value=9e-05  Score=66.24  Aligned_cols=137  Identities=18%  Similarity=0.152  Sum_probs=73.7

Q ss_pred             HhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc-HHHHHHHHHHHHHcCCHHHH
Q 015590          174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN-VRTYSTLMHGLCEKGNVEEA  252 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A  252 (404)
                      ...|++++|+..++.+.+.- |-|..........+.+.++.++|.+.++.+...  .|+ ...+-.+..+|.+.|++.+|
T Consensus       317 ~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         317 YLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHH
Confidence            34555666666666655542 344444455555566666666666666665554  233 34444555556666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          253 FGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       253 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +.+++........ |+..|..|.++|...|+..++..-..                  ..+...|+++.|...+....+.
T Consensus       394 i~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         394 IRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHHh
Confidence            6666655544332 55566666666666665555443332                  2334455555555555555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.57  E-value=1.1e-05  Score=66.20  Aligned_cols=155  Identities=18%  Similarity=0.093  Sum_probs=79.7

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      -..+...|+-+....+....... .+.|....+..+....+.|++..|...|.+..... ++|...|+.+.-+|.+.|++
T Consensus        73 a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~  150 (257)
T COG5010          73 ATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRF  150 (257)
T ss_pred             HHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccCh
Confidence            33344444444444444332221 13344444445555555566666666555555443 55555666666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      ++|..-|.+..+.-.. +...+|.+.-.+.-.|+.+.|..++......+. -|...-..+.......|++++|.++...
T Consensus       151 ~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         151 DEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             hHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            6666655555544222 344455555555555666666666655555431 1444455555555555666666555443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.57  E-value=4.1e-05  Score=62.91  Aligned_cols=159  Identities=18%  Similarity=0.093  Sum_probs=106.8

Q ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH-HHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHH
Q 015590           95 TLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY-NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL  173 (404)
Q Consensus        95 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  173 (404)
                      ..+-..+.-.|+-+....+.......   .+.+.... ........ .|++..|...|.+..... ++|...|+.+.-+|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~---~~~d~~ll~~~gk~~~~-~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaal  144 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA---YPKDRELLAAQGKNQIR-NGNFGEAVSVLRKAARLA-PTDWEAWNLLGAAL  144 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc---CcccHHHHHHHHHHHHH-hcchHHHHHHHHHHhccC-CCChhhhhHHHHHH
Confidence            55566666677777766666654322   23333333 23333443 788888888888877644 46677888888888


Q ss_pred             HhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHH
Q 015590          174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAF  253 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~  253 (404)
                      .+.|++++|..-|.+..+.- +-+....+.+.-.|.-.|+.+.|..++......+ ..|...-..+.......|++++|.
T Consensus       145 dq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~  222 (257)
T COG5010         145 DQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAE  222 (257)
T ss_pred             HHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHH
Confidence            88888888888888777764 4456667777777777788888888887776664 346666666777777788888887


Q ss_pred             HHHHHHH
Q 015590          254 GLLERME  260 (404)
Q Consensus       254 ~~~~~m~  260 (404)
                      ++-..-.
T Consensus       223 ~i~~~e~  229 (257)
T COG5010         223 DIAVQEL  229 (257)
T ss_pred             hhccccc
Confidence            7765543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.57  E-value=0.00032  Score=60.18  Aligned_cols=254  Identities=11%  Similarity=0.015  Sum_probs=116.1

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH-HHHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHH
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN-VIKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLL  173 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~  173 (404)
                      +|....--.-.+++|++++.++....   +.-...+. +...|++ ..-++-+.++++-....-  || +..-|......
T Consensus       156 SLAsvhYmR~HYQeAIdvYkrvL~dn---~ey~alNVy~ALCyyK-lDYydvsqevl~vYL~q~--pdStiA~NLkacn~  229 (557)
T KOG3785|consen  156 SLASVHYMRMHYQEAIDVYKRVLQDN---PEYIALNVYMALCYYK-LDYYDVSQEVLKVYLRQF--PDSTIAKNLKACNL  229 (557)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHhcC---hhhhhhHHHHHHHHHh-cchhhhHHHHHHHHHHhC--CCcHHHHHHHHHHH
Confidence            33333334446788888888876543   22222332 3444454 778888888887766542  44 34555554444


Q ss_pred             HhcCcHhHHHHHH--------------HHHHHcCC------------CCC-----HhHHHHHHHHHHhcCChHHHHHHHH
Q 015590          174 VSAKLYGEIQGIY--------------TSAAKLGV------------EID-----ACCLNILLKGLCENGNLEAAFYVLD  222 (404)
Q Consensus       174 ~~~~~~~~a~~~~--------------~~~~~~g~------------~~~-----~~~~~~li~~~~~~g~~~~a~~~~~  222 (404)
                      .+.=.-..|++-.              +.+.++++            -|.     +..--.|+-.|.+.+++.+|..+.+
T Consensus       230 fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~K  309 (557)
T KOG3785|consen  230 FRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCK  309 (557)
T ss_pred             hhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHh
Confidence            3321111122211              12222210            010     1122345556888899999998888


Q ss_pred             HchhCCCCCcHHHHHHHHHHHHHcC-------CHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          223 EFPKQNCEPNVRTYSTLMHGLCEKG-------NVEEAFGLLERMESEGIDADTVT-FNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       223 ~~~~~~~~~~~~~~~~li~~~~~~~-------~~~~A~~~~~~m~~~~~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      ++.    |.+..-|-.-.-.....|       ...-|.+.|.-.-+++..-|+.. -.++.+.+.-..++++++..+..+
T Consensus       310 dl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi  385 (557)
T KOG3785|consen  310 DLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSI  385 (557)
T ss_pred             hcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            876    333333322111222222       24455666655544443322211 122223333334445555544444


Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHcCCChHHHHHHH
Q 015590          295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKL-IHGLCNQKLVEDVDWVL  361 (404)
Q Consensus       295 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~l-i~~~~~~g~~~~a~~~~  361 (404)
                      ..-=..-|.. --.+..+.+..|.+.+|+++|-.+....++ |..+|.++ .++|.++|..+-|++++
T Consensus       386 ~sYF~NdD~F-n~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~  451 (557)
T KOG3785|consen  386 ESYFTNDDDF-NLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMM  451 (557)
T ss_pred             HHHhcCcchh-hhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHH
Confidence            4331111111 123444555555555555555544332222 22333322 34555555555554443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.56  E-value=8.1e-05  Score=61.29  Aligned_cols=249  Identities=13%  Similarity=0.091  Sum_probs=143.4

Q ss_pred             HHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCc
Q 015590           99 NKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKL  178 (404)
Q Consensus        99 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  178 (404)
                      +-+--.|++..+...-.......   .....-..+-.+|.. -|.+....   .+.+... .|.......+.......++
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~---~~~e~d~y~~raylA-lg~~~~~~---~eI~~~~-~~~lqAvr~~a~~~~~e~~   87 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSK---TDVELDVYMYRAYLA-LGQYQIVI---SEIKEGK-ATPLQAVRLLAEYLELESN   87 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhcccc---chhHHHHHHHHHHHH-cccccccc---ccccccc-CChHHHHHHHHHHhhCcch
Confidence            34445566666665555443221   112222223334443 44443322   2222211 2333333333333333343


Q ss_pred             Hh-HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          179 YG-EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       179 ~~-~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      .+ ...++.+.+.......+......-...|++.|++++|++..+...      +......=...+.+..+.+-|.+.++
T Consensus        88 ~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk  161 (299)
T KOG3081|consen   88 KKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELK  161 (299)
T ss_pred             hHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 333445555554444454445555667888888888888877632      22333333445567778888888888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 015590          258 RMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER  333 (404)
Q Consensus       258 ~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  333 (404)
                      +|.+-   -+..|.+.|..++.+    .+...+|.-+|++|.++ ..|+..+.+....++...|++++|..++++...+.
T Consensus       162 ~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  162 KMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             HHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            88765   256677766666654    45678888888888874 36788888888888888888888888888888764


Q ss_pred             CCCCHHHHHHHHHHHHcCCCh-HHHHHHHHHHHH
Q 015590          334 MSPSFVSYKKLIHGLCNQKLV-EDVDWVLKKMVQ  366 (404)
Q Consensus       334 ~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  366 (404)
                       ..++.+...++.+-...|.. +-..+.+.++..
T Consensus       238 -~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~  270 (299)
T KOG3081|consen  238 -AKDPETLANLIVLALHLGKDAEVTERNLSQLKL  270 (299)
T ss_pred             -CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence             34555555555555555543 444556666653

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.56  E-value=0.00037  Score=59.63  Aligned_cols=293  Identities=12%  Similarity=0.040  Sum_probs=191.0

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHH-HHHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV-IKIYG  138 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~-l~~~~  138 (404)
                      .+-..+...|++..|+..|..+.+-  -+.+-.++..-...|...|+-..|..=+.+..+..    ++.....+ -....
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelK----pDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELK----PDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcC----ccHHHHHHHhchhh
Confidence            4555667778888888888888542  12233345555667788888888888787776544    22211111 11222


Q ss_pred             hhcCCHHHHHHHHhhcccCCCCccH--------------HHH--HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH
Q 015590          139 NMAGRISKAIETLFDMPSYNCWPSV--------------KTF--NLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN  202 (404)
Q Consensus       139 ~~~g~~~~A~~~~~~m~~~~~~p~~--------------~~~--~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  202 (404)
                      .+.|.++.|..=|+...+..  |+.              ..|  ...+..+...|+...|+.....+.+.. +-|...+.
T Consensus       117 lK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~  193 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQ  193 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHH
Confidence            23788888888888877654  321              111  223445566788888888888888764 56788888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH----H-------
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVT----F-------  271 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~----~-------  271 (404)
                      .-..+|...|++..|..=+....+.. ..+..++--+-..+...|+.+.++...++..+.  .||-..    |       
T Consensus       194 ~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~  270 (504)
T KOG0624|consen  194 ARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVV  270 (504)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHH
Confidence            88888888899888887777666544 445566666777788888888888888887765  344321    1       


Q ss_pred             HHH--HHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHH
Q 015590          272 NIL--ISGLRKQGKVEEGMKLLERMKGKGCYPN---SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPS-FVSYKKLI  345 (404)
Q Consensus       272 ~~l--i~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~li  345 (404)
                      -.|  +......+++-++..-.+...+......   ...+..+-.++...+++.+|++.-.+..+.  .|| ..++.--.
T Consensus       271 K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dRA  348 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDRA  348 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHHH
Confidence            111  1223445677777777777776632211   233445566677778888888888888763  454 66666667


Q ss_pred             HHHHcCCChHHHHHHHHHHHH
Q 015590          346 HGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       346 ~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .+|.-...++.|+.=|+...+
T Consensus       349 eA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHh
Confidence            777777778888877777663

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.54  E-value=6.5e-06  Score=67.36  Aligned_cols=119  Identities=8%  Similarity=0.088  Sum_probs=83.3

Q ss_pred             cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH-HHHcCC--HHHH
Q 015590          176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-LCEKGN--VEEA  252 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~--~~~A  252 (404)
                      .++.+++...++...+.. +.|...|..+...|...|++++|...|+...+.. +.+...+..+..+ +...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            455566666666666654 5677777777777777777777777777777665 4566667666665 356565  4777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          253 FGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       253 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ..++++..+.+.. +...+..+...+...|++++|...|+++.+.
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            7777777776544 5666777777777777777777777777766

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.53  E-value=0.00052  Score=61.57  Aligned_cols=215  Identities=16%  Similarity=0.073  Sum_probs=140.8

Q ss_pred             CHHHHHHHHhhcccCC--CCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          143 RISKAIETLFDMPSYN--CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      ++.++...-+.++..+  -.|+...+...+.+......-..+-.++....+   +-......-....+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~---~~~~aa~YG~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSK---RGGLAAQYGRALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhC---ccchHHHHHHHHHHHHhcccchHHHH
Confidence            3455555555554422  124444555555544443333333333332222   11122233334445667889999999


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD-TVTFNILISGLRKQGKVEEGMKLLERMKGKGC  299 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  299 (404)
                      ++.+.+.- +.|...+......+.+.++.++|.+.++++...  .|+ ....-.+..+|.+.|++.+|..++++..... 
T Consensus       329 l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~-  404 (484)
T COG4783         329 LQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFND-  404 (484)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-
Confidence            99887763 556666677778889999999999999998877  454 5566677888999999999999998888774 


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC--CCCCCHHhHH
Q 015590          300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ--GFVPRMGMWR  377 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~  377 (404)
                      +-|+..|..|..+|...|+..++.....+                  .|...|++++|...+....+.  .-.|+-.-+.
T Consensus       405 p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~~~~~~~~~~aR~d  466 (484)
T COG4783         405 PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQQVKLGFPDWARAD  466 (484)
T ss_pred             CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34778899999999999988877765544                  355678888888888887765  2344444445


Q ss_pred             HHHHh
Q 015590          378 EIVGC  382 (404)
Q Consensus       378 ~ll~~  382 (404)
                      ..|..
T Consensus       467 ari~~  471 (484)
T COG4783         467 ARIDQ  471 (484)
T ss_pred             HHHHH
Confidence            55543

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

Probab=98.52  E-value=0.0008  Score=63.55  Aligned_cols=120  Identities=15%  Similarity=0.030  Sum_probs=51.2

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHc
Q 015590          272 NILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPS-FVSYKKLIHGLCN  350 (404)
Q Consensus       272 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~li~~~~~  350 (404)
                      ......+.+.++.++|.-.+.+..... ......|......+...|.+++|.+.|......  .|+ +....++..++..
T Consensus       654 llaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle  730 (799)
T KOG4162|consen  654 LLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLE  730 (799)
T ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHH
Confidence            344444455555555554444444331 112233333334444445555555555544432  232 2344444455555


Q ss_pred             CCChHHHHH--HHHHHHHCCCCCC-HHhHHHHHHhhccCCCCcchhhHH
Q 015590          351 QKLVEDVDW--VLKKMVQQGFVPR-MGMWREIVGCVTFGKDNRNRVYVT  396 (404)
Q Consensus       351 ~g~~~~a~~--~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~~~~  396 (404)
                      .|+..-|..  ++.++.+  +.|+ ...|..+=..+...|+.+.+...+
T Consensus       731 ~G~~~la~~~~~L~dalr--~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf  777 (799)
T KOG4162|consen  731 LGSPRLAEKRSLLSDALR--LDPLNHEAWYYLGEVFKKLGDSKQAAECF  777 (799)
T ss_pred             hCCcchHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHccchHHHHHHH
Confidence            554444444  4444442  2222 233433333444444444444433

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.51  E-value=9.3e-05  Score=72.78  Aligned_cols=240  Identities=10%  Similarity=0.046  Sum_probs=168.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHH
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN  167 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  167 (404)
                      +.+...+..|+..+...+++++|.++.+......   |....++......+.+.++.+++..+                 
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~---P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------   87 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKEH---KKSISALYISGILSLSRRPLNDSNLL-----------------   87 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---CcceehHHHHHHHHHhhcchhhhhhh-----------------
Confidence            3456789999999999999999999999765443   44433333333344335654433322                 


Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG  247 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  247 (404)
                      .++.......++..+..++..+...  .-+...+-.+..+|-+.|+.++|..+++++.+.. +-|..+.|-+...|... 
T Consensus        88 ~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-  163 (906)
T PRK14720         88 NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-  163 (906)
T ss_pred             hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-
Confidence            4555555566666666666666664  3456688899999999999999999999999988 77889999999999999 


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 015590          248 NVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVG  327 (404)
Q Consensus       248 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  327 (404)
                      +.++|..++.+....               +....++..+.++|.++...... +...+-.++......-          
T Consensus       164 dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~~~-d~d~f~~i~~ki~~~~----------  217 (906)
T PRK14720        164 DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYNSD-DFDFFLRIERKVLGHR----------  217 (906)
T ss_pred             hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcCcc-cchHHHHHHHHHHhhh----------
Confidence            999999999887654               56667899999999999987321 2223333333222221          


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC-CHHhHHHHHHhhc
Q 015590          328 RMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP-RMGMWREIVGCVT  384 (404)
Q Consensus       328 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~  384 (404)
                           |..--..++-.+-..|...++++++..+++.+.+  +.| |.....-++.+|.
T Consensus       218 -----~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~--~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        218 -----EFTRLVGLLEDLYEPYKALEDWDEVIYILKKILE--HDNKNNKAREELIRFYK  268 (906)
T ss_pred             -----ccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHh--cCCcchhhHHHHHHHHH
Confidence                 1222334566667788888999999999999995  444 3345666666665

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.51  E-value=2.7e-05  Score=70.74  Aligned_cols=242  Identities=12%  Similarity=0.062  Sum_probs=161.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++.+|.-.|+..++.+ +-+...|-.|.......++-..|+..+++..+.. +-+..+.-.|.-.|...|.-..|.+.
T Consensus       298 nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al~~  375 (579)
T KOG1125|consen  298 NGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQALKM  375 (579)
T ss_pred             cCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHHHH
Confidence            788888888888877765 2245688888888888888888888888888775 55677777788888888888888887


Q ss_pred             HHHchhCCC------C--CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 015590          221 LDEFPKQNC------E--PNVRTYSTLMHGLCEKGNVEEAFGLLERME-SEGIDADTVTFNILISGLRKQGKVEEGMKLL  291 (404)
Q Consensus       221 ~~~~~~~~~------~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~-~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  291 (404)
                      ++.-.....      .  ++...-+.  ..+.....+.+..++|-++. +.+..+|......|.-.|--.|++++|.+.|
T Consensus       376 L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf  453 (579)
T KOG1125|consen  376 LDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCF  453 (579)
T ss_pred             HHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHH
Confidence            776543210      0  00000000  12222334455566666554 4444466677777777777788888888888


Q ss_pred             HHHhhCCCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHHHC--
Q 015590          292 ERMKGKGCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMVQQ--  367 (404)
Q Consensus       292 ~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~--  367 (404)
                      +.....  +| |...||-|-..++...+.++|+..|++.++  ++|+. ....-|.-.|...|.+++|.+.|=..+..  
T Consensus       454 ~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  454 EAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            888776  34 556788888888888888888888888876  46654 34445677788888888888877655431  


Q ss_pred             -------CCCCCHHhHHHHHHhhccCCCCc
Q 015590          368 -------GFVPRMGMWREIVGCVTFGKDNR  390 (404)
Q Consensus       368 -------~~~p~~~~~~~ll~~~~~~~~~~  390 (404)
                             +-.++...|..|-.++...+..+
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCch
Confidence                   11223456666655555555555

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.47  E-value=0.00046  Score=56.96  Aligned_cols=251  Identities=11%  Similarity=0.090  Sum_probs=160.4

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      ++-+.-.|++..++..-+....   .+-+...-.-+-++|...|.+....   ..++..   ..++.....++..+...-
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~---~~~~~e~d~y~~raylAlg~~~~~~---~eI~~~---~~~~lqAvr~~a~~~~~e   85 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSS---SKTDVELDVYMYRAYLALGQYQIVI---SEIKEG---KATPLQAVRLLAEYLELE   85 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcc---ccchhHHHHHHHHHHHHcccccccc---cccccc---cCChHHHHHHHHHHhhCc
Confidence            5566677888888877666532   2345555556667777777765432   222211   122333333444444333


Q ss_pred             CCHHHH-HHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKA-IETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A-~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      ++-++- -.+.+.+.......+......-...|.+.+++++|++......      +......=+..+.+..+++-|.+.
T Consensus        86 ~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~  159 (299)
T KOG3081|consen   86 SNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKE  159 (299)
T ss_pred             chhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333 3344444443333333333444566889999999998876521      233333445556777889999999


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      ++.|.+-   .+..|.+.|..++.+    .+...+|.-+|++|.++ ..|+..+.+-...++...|++++|..++++...
T Consensus       160 lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~  235 (299)
T KOG3081|consen  160 LKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALD  235 (299)
T ss_pred             HHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHh
Confidence            9999864   355666666666654    45688999999999874 467888888888899999999999999999988


Q ss_pred             CCCCCChhhHHHHHHHHHhcCChhH-HHHHHHHHHHC
Q 015590          297 KGCYPNSASYQEVLYGLLDKKRFPE-AKELVGRMICE  332 (404)
Q Consensus       297 ~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~  332 (404)
                      +... ++.+...++-.-...|...+ ..+.+..++..
T Consensus       236 kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  236 KDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             ccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            8533 56777777766666666544 44556666543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.46  E-value=1.6e-05  Score=61.45  Aligned_cols=92  Identities=7%  Similarity=-0.208  Sum_probs=48.0

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      ....+...|++++|...|+...... +.+...+..+..++...|++++|...|+...+.+ +.+...+..+..++.+.|+
T Consensus        30 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~  107 (144)
T PRK15359         30 SGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE  107 (144)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence            4444455555555555555555443 3344555555555555555555555555555443 3444555555555555555


Q ss_pred             HHHHHHHHHHHHHC
Q 015590          249 VEEAFGLLERMESE  262 (404)
Q Consensus       249 ~~~A~~~~~~m~~~  262 (404)
                      .++|...|+...+.
T Consensus       108 ~~eAi~~~~~Al~~  121 (144)
T PRK15359        108 PGLAREAFQTAIKM  121 (144)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555555443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.43  E-value=0.00084  Score=57.52  Aligned_cols=296  Identities=10%  Similarity=0.058  Sum_probs=202.9

Q ss_pred             CCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh-HHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHH-
Q 015590           89 PNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD-GFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTF-  166 (404)
Q Consensus        89 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~-  166 (404)
                      .+..-..-+.+.+...|++..|+.-|....+.+   |++ ..++.-...|.. .|+-.-|+.=|.+..+.  +||-..- 
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~d---p~~Y~aifrRaT~yLA-mGksk~al~Dl~rVlel--KpDF~~AR  109 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEGD---PNNYQAIFRRATVYLA-MGKSKAALQDLSRVLEL--KPDFMAAR  109 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCC---chhHHHHHHHHHHHhh-hcCCccchhhHHHHHhc--CccHHHHH
Confidence            345555667788888999999999998887543   332 344444555666 78888888888887773  4774322 


Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC--Hh------------HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKLGVEID--AC------------CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN  232 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~------------~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  232 (404)
                      ..-...+.+.|.++.|..=|+.+.+.....+  ..            .....+..+...|+...|......+.+.. +-|
T Consensus       110 iQRg~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wd  188 (504)
T KOG0624|consen  110 IQRGVVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWD  188 (504)
T ss_pred             HHhchhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cch
Confidence            2234567899999999999999998742111  11            12234556777899999999999988765 678


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhh----HHH
Q 015590          233 VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSAS----YQE  308 (404)
Q Consensus       233 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~----~~~  308 (404)
                      ...|..-..+|...|++..|+.=++...+.... ++.++--+-..+...|+.+.++...++-.+.  .||...    |..
T Consensus       189 a~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKk  265 (504)
T KOG0624|consen  189 ASLRQARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKK  265 (504)
T ss_pred             hHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHH
Confidence            888999999999999999998887776655333 4555555666777889999999988888876  455322    211


Q ss_pred             H---------HHHHHhcCChhHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHh
Q 015590          309 V---------LYGLLDKKRFPEAKELVGRMICERMSPSF---VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR-MGM  375 (404)
Q Consensus       309 l---------i~~~~~~g~~~~a~~~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~  375 (404)
                      |         +......++|.++++..+...+.......   ..+..+-.++...|++.+|++...+.+  .+.|| ..+
T Consensus       266 lkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL--~~d~~dv~~  343 (504)
T KOG0624|consen  266 LKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL--DIDPDDVQV  343 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHH--hcCchHHHH
Confidence            1         22234567888888888888775322122   334455667778899999999999998  67777 445


Q ss_pred             HHHHHHhhccCCCCcchhhHH
Q 015590          376 WREIVGCVTFGKDNRNRVYVT  396 (404)
Q Consensus       376 ~~~ll~~~~~~~~~~~~~~~~  396 (404)
                      +---..+|....+.+.+..=+
T Consensus       344 l~dRAeA~l~dE~YD~AI~dy  364 (504)
T KOG0624|consen  344 LCDRAEAYLGDEMYDDAIHDY  364 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHH
Confidence            555555665555544444333

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.43  E-value=0.0013  Score=59.69  Aligned_cols=333  Identities=13%  Similarity=0.048  Sum_probs=204.8

Q ss_pred             CCCCCCCCccchh---hcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCC-HHHHHHHHHHHHhcCCchHHH
Q 015590           36 PSASHQDSDHHAY---KLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPN-EALYTLIINKLAQAKRFDAIE  111 (404)
Q Consensus        36 ~~~~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~  111 (404)
                      .++....+...|.   .++++|.+.|..-..+|+..|++++|+.--.+..   .+.|+ +..|+....++...|++++|.
T Consensus        14 s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~---~l~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   14 SSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTR---RLNPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             ccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHH---hcCCchhhHHHHhHHHHHhcccHHHHH
Confidence            3445555555554   3677899999999999999999999988666553   35676 568999999999999999999


Q ss_pred             HHHHHHHhcccCCCChHHHHHHH-HHHHhh----------------cCC-------------------------------
Q 015590          112 DIMQRIKVEKLCRFSDGFFYNVI-KIYGNM----------------AGR-------------------------------  143 (404)
Q Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~----------------~g~-------------------------------  143 (404)
                      .-|..-.+..   |++.....-+ .+....                .++                               
T Consensus        91 ~ay~~GL~~d---~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~  167 (539)
T KOG0548|consen   91 LAYSEGLEKD---PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLN  167 (539)
T ss_pred             HHHHHHhhcC---CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccc
Confidence            9999977654   5555544433 322110                000                               


Q ss_pred             ---HHHHHHHHhhc-----ccC-------CCCc---------cH-------------HHHHHHHHHHHhcCcHhHHHHHH
Q 015590          144 ---ISKAIETLFDM-----PSY-------NCWP---------SV-------------KTFNLVLNLLVSAKLYGEIQGIY  186 (404)
Q Consensus       144 ---~~~A~~~~~~m-----~~~-------~~~p---------~~-------------~~~~~ll~~~~~~~~~~~a~~~~  186 (404)
                         ...|.-.+...     ...       +..|         ..             .-...+.+...+..++..+++-|
T Consensus       168 d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y  247 (539)
T KOG0548|consen  168 DPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHY  247 (539)
T ss_pred             cHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHH
Confidence               01111111000     000       0001         00             01223444555556666666666


Q ss_pred             HHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHH-------HHHHHHHcCCHHHHHHHHHHH
Q 015590          187 TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYST-------LMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       187 ~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-------li~~~~~~~~~~~A~~~~~~m  259 (404)
                      .......  -+..-++....+|...|.+..+...-+...+.| .-...-|+.       +..+|.+.++++.|+..|.+.
T Consensus       248 ~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~g-re~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~ka  324 (539)
T KOG0548|consen  248 AKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVG-RELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKA  324 (539)
T ss_pred             HHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHh-HHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHH
Confidence            6666553  444555666667777777776666655555544 112222332       333566677888888888876


Q ss_pred             HHCCCCCCHHHH-------------------------HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHH
Q 015590          260 ESEGIDADTVTF-------------------------NILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLL  314 (404)
Q Consensus       260 ~~~~~~p~~~~~-------------------------~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  314 (404)
                      ......||..+=                         -.-...+.+.|++..|...|.++.... +-|...|..-..+|.
T Consensus       325 Lte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~  403 (539)
T KOG0548|consen  325 LTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYL  403 (539)
T ss_pred             hhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHH
Confidence            655444443221                         112345667789999999999988885 336678888888899


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 015590          315 DKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVG  381 (404)
Q Consensus       315 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  381 (404)
                      +.|.+..|++=.+...+.. ++....|..=..++....++++|.+.|++..+  ..|+..-+..-+.
T Consensus       404 kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale--~dp~~~e~~~~~~  467 (539)
T KOG0548|consen  404 KLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALE--LDPSNAEAIDGYR  467 (539)
T ss_pred             HHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCchhHHHHHHHH
Confidence            9999998888877777652 23334555555566667778888888888774  3365544333333

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.43  E-value=0.00015  Score=60.73  Aligned_cols=263  Identities=13%  Similarity=0.086  Sum_probs=154.6

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHH-HHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTL-IINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~-li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      +.-..+.+-..|.+..++..|-..|+++...   -|...-|.. -...+-+.+.+..|.++...|....  ...+....-
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql---~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~--~L~~~~lqL  117 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQL---HPELEQYRLYQAQSLYKACIYADALRVAFLLLDNP--ALHSRVLQL  117 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCH--HHHHHHHHH
Confidence            4445566667788888888899999888543   444444432 2345667888888888888774321  001111111


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG  212 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  212 (404)
                      --...+. .+++..+..+.++....|   +..+.+.......+.|+++.|.+-|+...+-|--.....|+.-+.. .+.|
T Consensus       118 qaAIkYs-e~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~  192 (459)
T KOG4340|consen  118 QAAIKYS-EGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSR  192 (459)
T ss_pred             HHHHhcc-cccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-Hhhh
Confidence            1111222 677777777777776543   4455555666667788888888888877765433334456554443 4467


Q ss_pred             ChHHHHHHHHHchhCCCC-------------Cc---------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-C
Q 015590          213 NLEAAFYVLDEFPKQNCE-------------PN---------------VRTYSTLMHGLCEKGNVEEAFGLLERMESE-G  263 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~-------------~~---------------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-~  263 (404)
                      +.+.|++...++.++|++             ||               +..+|.-...+.+.|+++.|.+-+-.|.-+ .
T Consensus       193 qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE  272 (459)
T KOG4340|consen  193 QYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAE  272 (459)
T ss_pred             hHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCccc
Confidence            778888888777776542             11               112333334456677777777777776422 2


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          264 IDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       264 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      -..|++|...+.-.= ..+++-+..+-+.-+...+. ....||..++-.||++.-++.|-.++.+
T Consensus       273 ~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  273 EELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             ccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            234666665443221 13344444444444444432 3456777777778887777777776654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.40  E-value=4.6e-05  Score=71.20  Aligned_cols=187  Identities=18%  Similarity=0.173  Sum_probs=131.7

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      ..+|.+|+.+++.+.+..  .-.--|..+...|+..|+++.|+++|.+.         ..++--|.+|.+.|+|++|.++
T Consensus       745 akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kl  813 (1636)
T KOG3616|consen  745 AKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKL  813 (1636)
T ss_pred             hhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHH
Confidence            788999999999988754  33446788889999999999999999643         2466789999999999999998


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY  300 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  300 (404)
                      -.+...  .......|-+-..-+-+.|++.+|.++|-.+.+    |+     ..|.+|-+.|..+..+++..+-...-  
T Consensus       814 a~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~h~d~--  880 (1636)
T KOG3616|consen  814 AEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKHHGDH--  880 (1636)
T ss_pred             HHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHhChhh--
Confidence            776543  244566777777778889999999888865542    34     25677888888888887776544321  


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHH
Q 015590          301 PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVL  361 (404)
Q Consensus       301 p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  361 (404)
                       -..|...+..-+-..|++..|.+-|-+.-+         |.+-++.|...+.|++|.++.
T Consensus       881 -l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  881 -LHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             -hhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHH
Confidence             224555566666777777777776655432         344445555555555555444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.40  E-value=1.6e-05  Score=61.55  Aligned_cols=93  Identities=8%  Similarity=-0.098  Sum_probs=48.1

Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQG  282 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  282 (404)
                      .+...+...|++++|...|+...... +.+...|..+...+.+.|++++|...|++....... +...+..+..++...|
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 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDAS-HPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHcC
Confidence            34444555555555555555555443 344555555555555555555555555555544322 4444555555555555


Q ss_pred             CHHHHHHHHHHHhhC
Q 015590          283 KVEEGMKLLERMKGK  297 (404)
Q Consensus       283 ~~~~a~~~~~~m~~~  297 (404)
                      +.++|...|+...+.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.40  E-value=7.4e-05  Score=70.73  Aligned_cols=251  Identities=11%  Similarity=0.024  Sum_probs=124.0

Q ss_pred             hccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCC--------CCCHHHHHHHHHHHHh
Q 015590           32 ALASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDY--------NPNEALYTLIINKLAQ  103 (404)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--------~p~~~~~~~li~~~~~  103 (404)
                      ++|...|+...+.+...-+.  +-..|..+-+.|.+.++.+-|.-.+..|...+|.        .|+ ++-..+......
T Consensus       736 SfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAie  812 (1416)
T KOG3617|consen  736 SFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIE  812 (1416)
T ss_pred             eEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHH
Confidence            34444555444433322222  2244555555555555555555554444332221        111 222222222345


Q ss_pred             cCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHH
Q 015590          104 AKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQ  183 (404)
Q Consensus       104 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  183 (404)
                      .|-+++|+.+|++.+.           +.++..++...|.+++|.++-+.-....+   ..||..-..-+-..++.+.|+
T Consensus       813 LgMlEeA~~lYr~ckR-----------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKR-----------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HhhHHHHHHHHHHHHH-----------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHH
Confidence            5555666666555432           12444444445666666555543322211   124444444444455555555


Q ss_pred             HHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 015590          184 GIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG  263 (404)
Q Consensus       184 ~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  263 (404)
                      +.|+....    +-..++..|.      .++...+.+.+.+      .|...|......+-..|+.+.|+.+|....   
T Consensus       879 eyyEK~~~----hafev~rmL~------e~p~~~e~Yv~~~------~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---  939 (1416)
T KOG3617|consen  879 EYYEKAGV----HAFEVFRMLK------EYPKQIEQYVRRK------RDESLYSWWGQYLESVGEMDAALSFYSSAK---  939 (1416)
T ss_pred             HHHHhcCC----hHHHHHHHHH------hChHHHHHHHHhc------cchHHHHHHHHHHhcccchHHHHHHHHHhh---
Confidence            55543211    1111111111      1122222222222      244556666666666778888887776654   


Q ss_pred             CCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          264 IDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       264 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                            -|-++++..|-.|+.++|-++-++-.      |....-.|.+.|-..|++.+|..+|-+..
T Consensus       940 ------D~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  940 ------DYFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ------hhhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                  24566677777777777777665433      55556667777777777777777776554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.39  E-value=5.7e-07  Score=50.70  Aligned_cols=33  Identities=52%  Similarity=0.935  Sum_probs=19.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD  267 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~  267 (404)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
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.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.39  E-value=6.4e-05  Score=72.96  Aligned_cols=210  Identities=11%  Similarity=0.024  Sum_probs=119.1

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccH-HHHHHHHHHHH
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSV-KTFNLVLNLLV  174 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~ll~~~~  174 (404)
                      .+=...-+.+.+..+..-+-++..--...+.+.....++.......|.+++|+.+++...+..  |+. .....+...+.
T Consensus        54 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~--Pd~~~a~~~~a~~L~  131 (694)
T PRK15179         54 QARQVLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF--PDSSEAFILMLRGVK  131 (694)
T ss_pred             HHHHHHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC--CCcHHHHHHHHHHHH
Confidence            333344444555544444444332211223334444444444444777777777777776643  554 35566667777


Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHH
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFG  254 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  254 (404)
                      +.+++++|...+++..... +-+......+..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|..
T Consensus       132 ~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~  209 (694)
T PRK15179        132 RQQGIEAGRAEIELYFSGG-SSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARD  209 (694)
T ss_pred             HhccHHHHHHHHHHHhhcC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHH
Confidence            7777777777777777664 4455566666677777777777777777777643 3446677777777777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCChhhHHHHHHHHHhc
Q 015590          255 LLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYPNSASYQEVLYGLLDK  316 (404)
Q Consensus       255 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~  316 (404)
                      .|++..+.- .|....|+..+      ++...-..+++++.-.    |......+...+|..|.+.
T Consensus       210 ~~~~a~~~~-~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (694)
T PRK15179        210 VLQAGLDAI-GDGARKLTRRL------VDLNADLAALRRLGVEGDGRDVPVSILVLEKMLQEIGRR  268 (694)
T ss_pred             HHHHHHHhh-CcchHHHHHHH------HHHHHHHHHHHHcCcccccCCCceeeeeHHHHHHHHhhc
Confidence            777765431 22334444433      2333444555555433    2222334455555555544

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.38  E-value=8.3e-05  Score=72.19  Aligned_cols=161  Identities=14%  Similarity=0.023  Sum_probs=121.0

Q ss_pred             CChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHH
Q 015590           69 RDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAI  148 (404)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  148 (404)
                      ..+.+++.-...+.+  .++.+...+-.|.....+.|++++|..+++.+.+..   |+.............+.+++++|+
T Consensus        66 ~~~~~~~~~~~~~~~--~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~---Pd~~~a~~~~a~~L~~~~~~eeA~  140 (694)
T PRK15179         66 HKPAAALPELLDYVR--RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF---PDSSEAFILMLRGVKRQQGIEAGR  140 (694)
T ss_pred             cchHhhHHHHHHHHH--hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC---CCcHHHHHHHHHHHHHhccHHHHH
Confidence            344444444444433  256778899999999999999999999999987664   444444444444444489999999


Q ss_pred             HHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          149 ETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       149 ~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      ..+++....+  |+ ......+..++.+.|++++|..+|+++...+ +-+..++..+...+-+.|+.++|...|+...+.
T Consensus       141 ~~~~~~l~~~--p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        141 AEIELYFSGG--SSSAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHhhcC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999998865  55 4567777888899999999999999999843 556888999999999999999999999988765


Q ss_pred             CCCCcHHHHHH
Q 015590          228 NCEPNVRTYST  238 (404)
Q Consensus       228 ~~~~~~~~~~~  238 (404)
                      . .+....|+.
T Consensus       218 ~-~~~~~~~~~  227 (694)
T PRK15179        218 I-GDGARKLTR  227 (694)
T ss_pred             h-CcchHHHHH
Confidence            3 344445443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.38  E-value=2.6e-05  Score=59.74  Aligned_cols=24  Identities=17%  Similarity=-0.032  Sum_probs=9.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      .|..+...+...|++++|...|++
T Consensus        53 ~~~~la~~~~~~~~~~~A~~~~~~   76 (135)
T TIGR02552        53 YWLGLAACCQMLKEYEEAIDAYAL   76 (135)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333333333333333333333

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.37  E-value=0.0011  Score=64.64  Aligned_cols=125  Identities=11%  Similarity=0.180  Sum_probs=63.6

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKR-KDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF  129 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  129 (404)
                      .+.|...|+.++.-   .+  .--..+.++..+. .+-..|++..+..++++-..+-..+..++++++.-....-..+..
T Consensus       948 ~R~D~~LW~~VL~e---~n--~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~n 1022 (1666)
T KOG0985|consen  948 ERSDPDLWAKVLNE---EN--PYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRN 1022 (1666)
T ss_pred             hccChHHHHHHHhc---cC--hHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchh
Confidence            35677777776631   11  1112233333221 112446666667777788888888888888877644422222334


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTS  188 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  188 (404)
                      ..+++..-+. .-+..++.+..+++...+. |+.      ...+...+-+++|..+|+.
T Consensus      1023 LQnLLiLtAi-kad~trVm~YI~rLdnyDa-~~i------a~iai~~~LyEEAF~ifkk 1073 (1666)
T KOG0985|consen 1023 LQNLLILTAI-KADRTRVMEYINRLDNYDA-PDI------AEIAIENQLYEEAFAIFKK 1073 (1666)
T ss_pred             hhhhHHHHHh-hcChHHHHHHHHHhccCCc-hhH------HHHHhhhhHHHHHHHHHHH
Confidence            4455444444 4555566666666555331 221      2223344445555555543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.35  E-value=0.00044  Score=56.68  Aligned_cols=188  Identities=15%  Similarity=0.068  Sum_probs=110.5

Q ss_pred             CChhHHHHHHHHHhhCC--C-CCCCHH-HHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCH
Q 015590           69 RDPISVISVLNQYSKRK--D-YNPNEA-LYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRI  144 (404)
Q Consensus        69 ~~~~~a~~~~~~~~~~~--~-~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  144 (404)
                      .++++.++++..+....  | ..++.. .|..++-+....|+.+.|..+++.+...-   |.+.-+-.+-.......|++
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 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF---PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC---CCChhHHHHHHHHHHHhhch
Confidence            46777777777765432  2 334443 35555556667777777777777765443   22222333333333346777


Q ss_pred             HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          145 SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      ++|.++++.+.+.+ +.|.+++---+...-..|..-+|++-+....+. +..|...|.-+...|...|++++|.-.++++
T Consensus       103 ~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~  180 (289)
T KOG3060|consen  103 KEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            77777777777765 344555555555555556555666666555544 4667777777777777777777777777776


Q ss_pred             hhCCCCCcHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHC
Q 015590          225 PKQNCEPNVRTYSTLMHGLCEKG---NVEEAFGLLERMESE  262 (404)
Q Consensus       225 ~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~  262 (404)
                      .-.. |.+...+..+...+.-.|   +.+-|...|.+..+.
T Consensus       181 ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  181 LLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            6553 444444445554443333   345566666666554

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.34  E-value=2.7e-05  Score=59.66  Aligned_cols=97  Identities=14%  Similarity=0.029  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      .....+...+...|++++|.+.++.+...+ +.+...+..+...+.+.|++++|..+++...+.+ +.+...+..+...|
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            344555566666777777777777766654 4466666667777777777777777777666554 44556666666677


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|++++|...|+...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7777777777777766655

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.31  E-value=1.2e-06  Score=48.90  Aligned_cols=32  Identities=25%  Similarity=0.621  Sum_probs=16.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDA  266 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p  266 (404)
                      +|+.+|.+|++.|+++.|.++|++|.+.|++|
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            45555555555555555555555555555444

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.27  E-value=1.7e-06  Score=48.62  Aligned_cols=33  Identities=36%  Similarity=0.707  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 015590          340 SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR  372 (404)
Q Consensus       340 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  372 (404)
                      +|+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            466666777777777777777777766666665

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=98.25  E-value=0.0011  Score=64.53  Aligned_cols=289  Identities=14%  Similarity=0.122  Sum_probs=157.4

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcC
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG  142 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  142 (404)
                      .....++-+++|..+|...      ..+......||.   .-+++++|.+.-+++.        ....|+-+...-.+.|
T Consensus      1056 ~iai~~~LyEEAF~ifkkf------~~n~~A~~VLie---~i~~ldRA~efAe~~n--------~p~vWsqlakAQL~~~ 1118 (1666)
T KOG0985|consen 1056 EIAIENQLYEEAFAIFKKF------DMNVSAIQVLIE---NIGSLDRAYEFAERCN--------EPAVWSQLAKAQLQGG 1118 (1666)
T ss_pred             HHHhhhhHHHHHHHHHHHh------cccHHHHHHHHH---HhhhHHHHHHHHHhhC--------ChHHHHHHHHHHHhcC
Confidence            3344445556666666654      223444444443   3455666666655542        2234444444433478


Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLD  222 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~  222 (404)
                      .+.+|.+-|-+..      |+..|..+++.+.+.|.|++..+++...++..-+|.  +=+.||-+|++.+++.+-++.+.
T Consensus      1119 ~v~dAieSyikad------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~ 1190 (1666)
T KOG0985|consen 1119 LVKDAIESYIKAD------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIA 1190 (1666)
T ss_pred             chHHHHHHHHhcC------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhc
Confidence            8888887775543      456788888888888888888888877776654443  44578888888888777655432


Q ss_pred             HchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHh-------
Q 015590          223 EFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK-------  295 (404)
Q Consensus       223 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-------  295 (404)
                             -||......+.+-|...|.++.|.-+|...         ..|..|...+...|++..|.+.-++..       
T Consensus      1191 -------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~ 1254 (1666)
T KOG0985|consen 1191 -------GPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDAARKANSTKTWKE 1254 (1666)
T ss_pred             -------CCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHH
Confidence                   366666666777777777777776666433         335555555555566555554433322       


Q ss_pred             -----------------hCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHH
Q 015590          296 -----------------GKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVD  358 (404)
Q Consensus       296 -----------------~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  358 (404)
                                       ...+-....-..-++.-|-..|-+++.+.+++..... -+.....|+-+.-.|++-. +++..
T Consensus      1255 VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGL-ERAHMgmfTELaiLYskyk-p~km~ 1332 (1666)
T KOG0985|consen 1255 VCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGL-ERAHMGMFTELAILYSKYK-PEKMM 1332 (1666)
T ss_pred             HHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhch-hHHHHHHHHHHHHHHHhcC-HHHHH
Confidence                             1111112222334444444555555555544443311 0122334444444444432 33333


Q ss_pred             HHHHHHHHC-CCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          359 WVLKKMVQQ-GFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       359 ~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      +-++-.-.+ ++       -.+++++-....|.+.+.++..-++
T Consensus      1333 EHl~LFwsRvNi-------pKviRA~eqahlW~ElvfLY~~y~e 1369 (1666)
T KOG0985|consen 1333 EHLKLFWSRVNI-------PKVIRAAEQAHLWSELVFLYDKYEE 1369 (1666)
T ss_pred             HHHHHHHHhcch-------HHHHHHHHHHHHHHHHHHHHHhhhh
Confidence            333333222 22       2566777777777776666654443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.23  E-value=0.00011  Score=57.08  Aligned_cols=16  Identities=6%  Similarity=-0.157  Sum_probs=6.6

Q ss_pred             HHHHcCCChHHHHHHH
Q 015590          346 HGLCNQKLVEDVDWVL  361 (404)
Q Consensus       346 ~~~~~~g~~~~a~~~~  361 (404)
                      +.|...|++++|+..|
T Consensus       126 di~~~~g~~~~A~~~y  141 (145)
T PF09976_consen  126 DIYLAQGDYDEARAAY  141 (145)
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            3344444444444433

>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=98.22  E-value=5e-05  Score=68.24  Aligned_cols=114  Identities=20%  Similarity=0.173  Sum_probs=73.3

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .++++.|.++|+++.+..  |+.  ...+++.+...++..+|.+++.+..+.. +.+......-...+.+.++++.|..+
T Consensus       182 t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lAL~i  256 (395)
T PF09295_consen  182 TQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELALEI  256 (395)
T ss_pred             cccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            667777777777776654  442  3335566666666667777776666543 44555566666667777777777777


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      .+++.+.. |-+-.+|..|..+|.+.|+++.|+..++.+.
T Consensus       257 Ak~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  257 AKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            77766653 3344577777777777777777777666654

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=2.9e-06  Score=47.37  Aligned_cols=32  Identities=19%  Similarity=0.326  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 015590          340 SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       340 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  371 (404)
                      +|+.++.+|++.|+++.|.++|++|.+.|++|
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            55666666666666666666666666655555

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.20  E-value=0.0022  Score=52.70  Aligned_cols=85  Identities=16%  Similarity=0.137  Sum_probs=38.1

Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      .|++++|.++++.+.+.+ +.|.+++---+...-..|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.
T Consensus        99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fC  176 (289)
T KOG3060|consen   99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFC  176 (289)
T ss_pred             hhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHH
Confidence            344444444444444443 334444444344444444444444444444333 122444454444555555555555444


Q ss_pred             HHHHhhC
Q 015590          291 LERMKGK  297 (404)
Q Consensus       291 ~~~m~~~  297 (404)
                      ++++.-.
T Consensus       177 lEE~ll~  183 (289)
T KOG3060|consen  177 LEELLLI  183 (289)
T ss_pred             HHHHHHc
Confidence            4444433

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.19  E-value=3.1e-05  Score=69.92  Aligned_cols=124  Identities=15%  Similarity=0.084  Sum_probs=101.2

Q ss_pred             CCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc--CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHH
Q 015590          158 NCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL--GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRT  235 (404)
Q Consensus       158 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  235 (404)
                      +.+.+......+++.+....+.+.+..++-.....  ....-..|..++++.|.+.|..+.+..++..=...|+-||..+
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            34567778888888888888888888888887765  2333345667999999999999999999999889999999999


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      +|.+|+.+.+.|++..|.++...|...+...+..|+...+.+|.+.
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            9999999999999999999999888877777778877777776665

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=98.16  E-value=0.00022  Score=64.20  Aligned_cols=122  Identities=17%  Similarity=0.178  Sum_probs=73.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ..|+..+...++++.|..+|+++.+..  |+  ....++..+...++..+|.+++.+..+.... +......-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence            344555555666777777777766552  33  3334566666666666677766666654222 444444445556666


Q ss_pred             CCHHHHHHHHHHHhhCCCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          282 GKVEEGMKLLERMKGKGCYPNS-ASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      ++.+.|+.+.+++...  .|+. .+|..|..+|...|+++.|+..++.+.
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            6667777777666665  3433 466666667777777777766666554

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.14  E-value=4.3e-05  Score=69.03  Aligned_cols=121  Identities=13%  Similarity=0.108  Sum_probs=97.0

Q ss_pred             CChHHHHHHHHHHHhhcCCHHHHHHHHhhcccC--CCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH
Q 015590          125 FSDGFFYNVIKIYGNMAGRISKAIETLFDMPSY--NCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN  202 (404)
Q Consensus       125 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  202 (404)
                      .+...+..++..... ..+.+.+..++.+....  ....-..|..++++.|.+.|..+.++.++..=...|+=||.+++|
T Consensus        64 vS~~dld~fvn~~~~-~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   64 VSSLDLDIFVNNVES-KDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CcHHHHHHHHhhcCC-HhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            334344444444444 67788899988887764  222223566799999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK  246 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  246 (404)
                      .||+.+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999998887677778887777777766

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 [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.14  E-value=0.0096  Score=57.58  Aligned_cols=224  Identities=13%  Similarity=0.075  Sum_probs=135.1

Q ss_pred             cCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHH
Q 015590           67 NLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISK  146 (404)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  146 (404)
                      ..+++..|+......+++.+-.+-..++.++.  +.+.|+.++|..+++.....   ++++......+..+++..|+.++
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~---~~~D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGL---KGTDDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccC---CCCchHHHHHHHHHHHHHhhhhH
Confidence            45678888888888877654333333443332  45788888888777776433   24466666666666666888888


Q ss_pred             HHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC----------hHH
Q 015590          147 AIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN----------LEA  216 (404)
Q Consensus       147 A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~  216 (404)
                      |..+|++.....  |+..-...+..+|++.+++.+-.+.--++-+. ++.+.+.+=++++.+...-.          ..-
T Consensus        96 ~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            888888887654  77666666777788877776655554444443 34444444445544443311          234


Q ss_pred             HHHHHHHchhCCCCC-cHHHHHHHHHHHHHcCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          217 AFYVLDEFPKQNCEP-NVRTYSTLMHGLCEKGNVEEAFGLLE-RMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       217 a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~-~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      |.+.++.+.+.+-+. +..-.-.-...+-..|++++|.+++. ...+.-..-+...-+--+..+...+++.+..++-.++
T Consensus       173 A~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~L  252 (932)
T KOG2053|consen  173 AEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRL  252 (932)
T ss_pred             HHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence            556666665543111 11112222333445677888888873 3433333334444455667777788888888888888


Q ss_pred             hhCC
Q 015590          295 KGKG  298 (404)
Q Consensus       295 ~~~~  298 (404)
                      ...|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            7774

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.10  E-value=0.0011  Score=63.27  Aligned_cols=266  Identities=11%  Similarity=0.092  Sum_probs=166.9

Q ss_pred             cccCCCCCHHHHH--HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCC---
Q 015590           50 LNHKDWLSPTEVL--KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCR---  124 (404)
Q Consensus        50 ~~~~~~~~~~~li--~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---  124 (404)
                      +...|..+-..++  +.|..-|+.+.|..-+.-.       .+..+|..+.++|.+.++++-|.-.+..|.......   
T Consensus       721 le~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~I-------kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR  793 (1416)
T KOG3617|consen  721 LENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFI-------KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALR  793 (1416)
T ss_pred             ccccCHHHHHhhhceeEEEEeccHHHHHHHHHHH-------hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHH
Confidence            3444555555555  3566668888888776655       256789999999999999999988888775432100   


Q ss_pred             ---CChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHH
Q 015590          125 ---FSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL  201 (404)
Q Consensus       125 ---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  201 (404)
                         .++.-...-+..++..-|..++|+.+|.+-+.         |..|=..|...|.|++|.++-+.--+..   -..||
T Consensus       794 ~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Ty  861 (1416)
T KOG3617|consen  794 RAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTY  861 (1416)
T ss_pred             HHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcccee---hhhhH
Confidence               00111122233333346777788877776543         3344455666788888877765332221   23456


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ......+-..+|.+.|++.|+...    .+--..+..|.      .++.......+++.      |...|.--.......
T Consensus       862 y~yA~~Lear~Di~~AleyyEK~~----~hafev~rmL~------e~p~~~e~Yv~~~~------d~~L~~WWgqYlES~  925 (1416)
T KOG3617|consen  862 YNYAKYLEARRDIEAALEYYEKAG----VHAFEVFRMLK------EYPKQIEQYVRRKR------DESLYSWWGQYLESV  925 (1416)
T ss_pred             HHHHHHHHhhccHHHHHHHHHhcC----ChHHHHHHHHH------hChHHHHHHHHhcc------chHHHHHHHHHHhcc
Confidence            666666666777788877777654    22222222221      12333333333332      444455455556678


Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHH
Q 015590          282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVL  361 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  361 (404)
                      |+.+.|+.+|....+         |-+++...|-.|+.++|-++-++-      -|......+.+.|-..|++.+|..+|
T Consensus       926 GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~Ff  990 (1416)
T KOG3617|consen  926 GEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFF  990 (1416)
T ss_pred             cchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            999999999987664         455667777889999998887653      35555666889999999999999998


Q ss_pred             HHHH
Q 015590          362 KKMV  365 (404)
Q Consensus       362 ~~m~  365 (404)
                      .+..
T Consensus       991 TrAq  994 (1416)
T KOG3617|consen  991 TRAQ  994 (1416)
T ss_pred             HHHH
Confidence            7754

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.06  E-value=5.4e-06  Score=45.08  Aligned_cols=28  Identities=36%  Similarity=0.801  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +|+.+|++|++.|++++|.++|++|.+.
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            3444444444444444444444444443

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.04  E-value=0.00031  Score=54.51  Aligned_cols=80  Identities=14%  Similarity=0.083  Sum_probs=35.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccH--HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSV--KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAF  218 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  218 (404)
                      .|++++|...|+........|+.  .....+...+...|++++|+..++.....  ......+....+.|.+.|++++|.
T Consensus        61 ~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~  138 (145)
T PF09976_consen   61 QGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEAR  138 (145)
T ss_pred             CCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHH
Confidence            45555555555554443311111  12223344445555555555555442222  122334444455555555555555


Q ss_pred             HHHH
Q 015590          219 YVLD  222 (404)
Q Consensus       219 ~~~~  222 (404)
                      ..|+
T Consensus       139 ~~y~  142 (145)
T PF09976_consen  139 AAYQ  142 (145)
T ss_pred             HHHH
Confidence            5554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.03  E-value=0.00011  Score=52.13  Aligned_cols=78  Identities=10%  Similarity=0.252  Sum_probs=49.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHcCC--------ChHHHHHHHHHHHHCCCCCCHHhHHH
Q 015590          308 EVLYGLLDKKRFPEAKELVGRMICERM-SPSFVSYKKLIHGLCNQK--------LVEDVDWVLKKMVQQGFVPRMGMWRE  378 (404)
Q Consensus       308 ~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~p~~~~~~~  378 (404)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-+.+.+|+.|...+++|+..||+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            334445555666666666666666666 666666666666555432        23455667777777777777777777


Q ss_pred             HHHhhcc
Q 015590          379 IVGCVTF  385 (404)
Q Consensus       379 ll~~~~~  385 (404)
                      +++++.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            7776654

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 [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.03  E-value=0.0001  Score=52.34  Aligned_cols=76  Identities=18%  Similarity=0.282  Sum_probs=40.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHcCC--------CHHHHHHHHHHHhhCCCCCChhhHHHH
Q 015590          239 LMHGLCEKGNVEEAFGLLERMESEGI-DADTVTFNILISGLRKQG--------KVEEGMKLLERMKGKGCYPNSASYQEV  309 (404)
Q Consensus       239 li~~~~~~~~~~~A~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~p~~~~~~~l  309 (404)
                      .|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-+.+.+|++|...+++|+..+|+.+
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            44444455666666666666666665 556666666655554432        122344555555555555555555555


Q ss_pred             HHHHH
Q 015590          310 LYGLL  314 (404)
Q Consensus       310 i~~~~  314 (404)
                      +..+.
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            55443

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 [, , ].

>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=97.98  E-value=0.00017  Score=50.81  Aligned_cols=85  Identities=22%  Similarity=0.221  Sum_probs=32.4

Q ss_pred             HHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHH
Q 015590          172 LLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEE  251 (404)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  251 (404)
                      .+...|++++|...++...+.. +.+...+..+...+...|++++|.+.|+...+.. +.+..++..+...+...|++++
T Consensus         9 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~   86 (100)
T cd00189           9 LYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEE   86 (100)
T ss_pred             HHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHH
Confidence            3333444444444444443332 1222333333344444444444444444433322 2222333333444444444444


Q ss_pred             HHHHHHH
Q 015590          252 AFGLLER  258 (404)
Q Consensus       252 A~~~~~~  258 (404)
                      |...+..
T Consensus        87 a~~~~~~   93 (100)
T cd00189          87 ALEAYEK   93 (100)
T ss_pred             HHHHHHH
Confidence            4444433

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.97  E-value=1e-05  Score=43.93  Aligned_cols=29  Identities=41%  Similarity=0.789  Sum_probs=17.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      +|+.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            55666666666666666666666665554

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.90  E-value=0.0003  Score=49.44  Aligned_cols=92  Identities=21%  Similarity=0.185  Sum_probs=46.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ..+...+...|++++|...++...+.. +.+...+..+...+...+++++|...|+........ +..++..+...+...
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   81 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHH
Confidence            344445555555666655555554432 223344555555555555555555555555443222 223444444555555


Q ss_pred             CCHHHHHHHHHHHh
Q 015590          282 GKVEEGMKLLERMK  295 (404)
Q Consensus       282 g~~~~a~~~~~~m~  295 (404)
                      |+.++|...+....
T Consensus        82 ~~~~~a~~~~~~~~   95 (100)
T cd00189          82 GKYEEALEAYEKAL   95 (100)
T ss_pred             HhHHHHHHHHHHHH
Confidence            55555555555444

>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=97.85  E-value=0.00044  Score=55.62  Aligned_cols=128  Identities=17%  Similarity=0.250  Sum_probs=79.5

Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEK-----GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ...|+.....  ..|..+|..+++.|.+.     |..+-....++.|.+-|+.-|..+|+.|++.+=+ |.+-       
T Consensus        34 ~~~f~~~~~~--~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-------  103 (228)
T PF06239_consen   34 EELFERAPGQ--AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-------  103 (228)
T ss_pred             HHHHHHHhhc--cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-------
Confidence            3444444222  56777777777777654     5667777777777777777777788777776553 3221       


Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCh-HHHHHHHHHHHH
Q 015590          293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLV-EDVDWVLKKMVQ  366 (404)
Q Consensus       293 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  366 (404)
                              |. ..+.++..-|  -.+-+-|++++++|...|+.||..++..+++.+++.+.. .+..++.--|-+
T Consensus       104 --------p~-n~fQ~~F~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  104 --------PR-NFFQAEFMHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             --------cc-cHHHHHhccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence                    11 1111111111  234567888888888888888888888888888877653 444444444433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.85  E-value=0.00055  Score=59.49  Aligned_cols=145  Identities=13%  Similarity=0.087  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh-cCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE-NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      .+|..+++..-+.+..+.|..+|.+..+.+ ..+..+|.....+-.. .++.+.|.++|+...+. ++.+...|...++.
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            467777777777777888888888887543 3344445444444333 45666688888877654 25667777788888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDAD---TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL  313 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  313 (404)
                      +.+.|+.+.|..+|++.... +.++   ...|...+..-.+.|+.+.+..+.+++.+.  -|+......+++-|
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-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFSDRY  150 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHCCT
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHHHh
Confidence            88888888888888887655 2222   237777777777788888888888777765  44444444444433

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=97.84  E-value=0.001  Score=49.46  Aligned_cols=95  Identities=13%  Similarity=0.020  Sum_probs=40.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHH
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESEGID--ADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC--YPNSASYQEVLYGL  313 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~  313 (404)
                      .....+.+.|++++|...|+.+......  .....+..+...+.+.|++++|...|+.+.....  ......+..+..++
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            3344444445555555555544433111  0112333344444445555555555554443310  01123344444444


Q ss_pred             HhcCChhHHHHHHHHHHHC
Q 015590          314 LDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       314 ~~~g~~~~a~~~~~~~~~~  332 (404)
                      .+.|+.++|.+.++++.+.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHhCChHHHHHHHHHHHHH
Confidence            4445555555555544443

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=97.82  E-value=0.00077  Score=58.56  Aligned_cols=130  Identities=10%  Similarity=0.016  Sum_probs=93.9

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHH-HHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNL-LVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGL  208 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  208 (404)
                      +|.....+.++.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+. ++.+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            34444456666788999999999987643 1233445444444 33357777799999998876 577888889999999


Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNV---RTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+.++.+.|..+|+..... ++++.   ..|...+.-=.+.|+.+.+..+.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999988765 23332   48999999889999999999999888875

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.

>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=97.79  E-value=0.00034  Score=56.22  Aligned_cols=116  Identities=16%  Similarity=0.232  Sum_probs=80.9

Q ss_pred             HHHHHHHHHHcCCCCCHhHHHHHHHHHHhc-----CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Q 015590          182 IQGIYTSAAKLGVEIDACCLNILLKGLCEN-----GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLL  256 (404)
Q Consensus       182 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  256 (404)
                      ....|+....  -..+..+|..+++.|.+.     |..+-....+..|.+.|+..|..+|+.|++.+=+ |.+- -..+|
T Consensus        33 ~~~~f~~~~~--~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~f  108 (228)
T PF06239_consen   33 HEELFERAPG--QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFF  108 (228)
T ss_pred             hHHHHHHHhh--ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHH
Confidence            3444444432  257889999999999865     7788888889999999999999999999998775 3322 11222


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCC
Q 015590          257 ERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKR  318 (404)
Q Consensus       257 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  318 (404)
                      +.+-..                 .-.+-+-|++++++|...|+.||..++..+++.+++.+.
T Consensus       109 Q~~F~h-----------------yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  109 QAEFMH-----------------YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHhcc-----------------CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            222111                 113345677788888888888888888888888776654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.78  E-value=0.0073  Score=55.13  Aligned_cols=151  Identities=15%  Similarity=0.098  Sum_probs=109.7

Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC-cHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP-NVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      .+....+++.+...-..--..+|..+++.--+..-++.|..+|.+..+.+..+ ++..++++|.-||. ++.+-|.++|+
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            55666666666654323334577778888888888888888998888876666 77788888887665 67788888887


Q ss_pred             HHHHCCCCCCHHHH-HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh--hhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          258 RMESEGIDADTVTF-NILISGLRKQGKVEEGMKLLERMKGKGCYPNS--ASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       258 ~m~~~~~~p~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      --.+.  -+|...| ...+..+...++-..+..+|++....++.|+.  ..|..+|+--..-|++..+.++-+++...
T Consensus       426 LGLkk--f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  426 LGLKK--FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHh--cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            65544  2233333 56677778888888888899888888666553  67888888888888888888887776543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.77  E-value=0.00086  Score=49.82  Aligned_cols=27  Identities=33%  Similarity=0.191  Sum_probs=11.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      +..+..++.+.|+.++|...++++.+.
T Consensus        79 ~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        79 LLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            333334444444444444444444433

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.75  E-value=0.032  Score=51.01  Aligned_cols=201  Identities=15%  Similarity=0.100  Sum_probs=137.9

Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH-------HHH
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN-------ILL  205 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~-------~li  205 (404)
                      +....+. ..+++.|++.+....+..  -+..-++....++...|.+.+....-....+.|.. ...-|+       .+.
T Consensus       230 lgnaayk-kk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  230 LGNAAYK-KKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHH-hhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhh
Confidence            3344444 677888888888877754  44555667777888999888888877777766522 222222       234


Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHH-------------------------HHHHHHHHcCCHHHHHHHHHHHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYS-------------------------TLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------------------------~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      .+|.+.++++.+...|.+.......|+..+-.                         .-.+.+.+.|++..|+..|.++.
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAI  385 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAI  385 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            46777788999999888766543344432211                         12345677899999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH
Q 015590          261 SEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV  339 (404)
Q Consensus       261 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  339 (404)
                      +.... |...|..-.-+|.+.|.+..|+.=.+...+.  .|+ ...|..=..++....+++.|.+.|++..+.  .|+..
T Consensus       386 kr~P~-Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL--~p~~~kgy~RKg~al~~mk~ydkAleay~eale~--dp~~~  460 (539)
T KOG0548|consen  386 KRDPE-DARLYSNRAACYLKLGEYPEALKDAKKCIEL--DPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL--DPSNA  460 (539)
T ss_pred             hcCCc-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CchhH
Confidence            88644 7889999999999999999999887777766  233 233333334444456889999999998875  45544


Q ss_pred             HHH
Q 015590          340 SYK  342 (404)
Q Consensus       340 ~~~  342 (404)
                      -+.
T Consensus       461 e~~  463 (539)
T KOG0548|consen  461 EAI  463 (539)
T ss_pred             HHH
Confidence            433

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.73  E-value=0.031  Score=50.10  Aligned_cols=129  Identities=12%  Similarity=0.118  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHhhCC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHH-HHHHH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMKGKG-CYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSY-KKLIH  346 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~-~~li~  346 (404)
                      ..|...+..-.+..-.+.|..+|-+..+.| +.+++..+++++..++ .|+...|..+|+.-...  -||...| .-.+.
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~  474 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLL  474 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHH
Confidence            456777888788888999999999999988 6788888999998655 57888999999876654  3444443 45667


Q ss_pred             HHHcCCChHHHHHHHHHHHHCCCCCC--HHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          347 GLCNQKLVEDVDWVLKKMVQQGFVPR--MGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       347 ~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      -+...++-+.|..+|+.-+++ +.-+  ...|..+|..=..-|+..++..+.+.+++
T Consensus       475 fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         475 FLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            778889999999999966553 2222  34788888877777888888777777654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.73  E-value=0.013  Score=49.62  Aligned_cols=176  Identities=13%  Similarity=0.077  Sum_probs=88.0

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHH---HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH-
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL---NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE-  245 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-  245 (404)
                      ...+.+.|++++|.+.|+.+...- +-+....   -.+..+|.+.+++++|...+++..+....-....|...+.+.+. 
T Consensus        39 A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         39 AQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            333445666666666666666542 1112221   23445566666666666666666554311112223333333221 


Q ss_pred             -c---------------CC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhH
Q 015590          246 -K---------------GN---VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASY  306 (404)
Q Consensus       246 -~---------------~~---~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  306 (404)
                       .               .+   ..+|+..|+++.+.  -|+             ..-..+|...+..+...    -...-
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~-------------S~ya~~A~~rl~~l~~~----la~~e  178 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPN-------------SQYTTDATKRLVFLKDR----LAKYE  178 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcC-------------ChhHHHHHHHHHHHHHH----HHHHH
Confidence             0               11   22344445444443  222             22234444433333322    00111


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICE--RMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      -.+...|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|..+...+.
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            13455577777777777777777765  233344556667777878888777777666553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.72  E-value=0.0023  Score=51.23  Aligned_cols=85  Identities=14%  Similarity=0.059  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC--HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID--ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      .+..+...+...|++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+..+.. +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            445555555556666666666665554322111  2455555666666666666666666555442 2334445555555


Q ss_pred             HHHcCCHH
Q 015590          243 LCEKGNVE  250 (404)
Q Consensus       243 ~~~~~~~~  250 (404)
                      +...|+..
T Consensus       116 ~~~~g~~~  123 (172)
T PRK02603        116 YHKRGEKA  123 (172)
T ss_pred             HHHcCChH
Confidence            55555533

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.72  E-value=0.0061  Score=53.18  Aligned_cols=25  Identities=16%  Similarity=0.038  Sum_probs=11.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      ..+...+.+.|++++|.++|++...
T Consensus       159 ~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  159 LKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            3444445555555555555555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.71  E-value=0.012  Score=49.85  Aligned_cols=180  Identities=12%  Similarity=0.047  Sum_probs=106.3

Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHH-H---HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHH
Q 015590          129 FFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVK-T---FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNIL  204 (404)
Q Consensus       129 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~---~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  204 (404)
                      ..+........ .|++++|.+.|+++....  |+.. .   .-.+..++.+.+++++|...+++..+.-......-+...
T Consensus        34 ~~Y~~A~~~~~-~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y  110 (243)
T PRK10866         34 EIYATAQQKLQ-DGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLY  110 (243)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHH
Confidence            34344444444 688888888888887643  3322 2   234567778888888888888888876422222233333


Q ss_pred             HHHHHh--cC---------------C---hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 015590          205 LKGLCE--NG---------------N---LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI  264 (404)
Q Consensus       205 i~~~~~--~g---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~  264 (404)
                      +.+.+.  .+               |   ..+|...|+.               ++.-|-...-..+|...+..+...  
T Consensus       111 ~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~---------------li~~yP~S~ya~~A~~rl~~l~~~--  173 (243)
T PRK10866        111 MRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSK---------------LVRGYPNSQYTTDATKRLVFLKDR--  173 (243)
T ss_pred             HHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHH---------------HHHHCcCChhHHHHHHHHHHHHHH--
Confidence            333321  11               1   1223333333               444444444455555554444332  


Q ss_pred             CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          265 DADTVTFNILISGLRKQGKVEEGMKLLERMKGK--GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       265 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                       .-..- -.+.+.|.+.|.+..|..-++.+.+.  +..........++.+|...|..++|.++...+.
T Consensus       174 -la~~e-~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 -LAKYE-LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             -HHHHH-HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence             01111 24566688888888888888888877  444455667788888888888888888776654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.69  E-value=0.061  Score=52.31  Aligned_cols=224  Identities=13%  Similarity=0.102  Sum_probs=147.4

Q ss_pred             HhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh-hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHh
Q 015590          102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN-MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYG  180 (404)
Q Consensus       102 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  180 (404)
                      ...+++..|..-...+...-    |+..+...+.++.. +.|+.++|..+++.....+.. |..|...+-.+|...++.+
T Consensus        20 ld~~qfkkal~~~~kllkk~----Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH----PNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC----CCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            46678888888888876543    34444444433332 489999999999888775533 7789999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC-C---------HH
Q 015590          181 EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG-N---------VE  250 (404)
Q Consensus       181 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~---------~~  250 (404)
                      +|..+|+...+.  -|+......+..+|.+-+++.+-.+.--++-+. .+.+...+=++++.+.+.- .         ..
T Consensus        95 ~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~  171 (932)
T KOG2053|consen   95 EAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLA  171 (932)
T ss_pred             HHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHH
Confidence            999999999876  466778888889999988876544433333332 1334444444445444432 1         22


Q ss_pred             HHHHHHHHHHHCC-CCCCHHHHHHHHHHHHcCCCHHHHHHHHH-HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          251 EAFGLLERMESEG-IDADTVTFNILISGLRKQGKVEEGMKLLE-RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       251 ~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~-~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      -|.+.++.+.+.+ .--+..-...-...+...|++++|++++. ...+.-...+...-+--+..+...+++.+..++-.+
T Consensus       172 LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~  251 (932)
T KOG2053|consen  172 LAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSR  251 (932)
T ss_pred             HHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHH
Confidence            3555566665543 11122222233444567788999999994 444443334455555667778888999999999988


Q ss_pred             HHHCC
Q 015590          329 MICER  333 (404)
Q Consensus       329 ~~~~~  333 (404)
                      +...|
T Consensus       252 Ll~k~  256 (932)
T KOG2053|consen  252 LLEKG  256 (932)
T ss_pred             HHHhC
Confidence            88875

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.67  E-value=0.0017  Score=58.48  Aligned_cols=86  Identities=8%  Similarity=-0.084  Sum_probs=62.2

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|++.|++..+.+ +.+...|..+..++.+.|++++|+..++.+.+.. +.+...|..+..+|...|++++|...
T Consensus        15 ~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~~   92 (356)
T PLN03088         15 DDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKAA   92 (356)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            678888888888777654 2245567777777777788888888887777764 44566777777777778888888888


Q ss_pred             HHHchhCC
Q 015590          221 LDEFPKQN  228 (404)
Q Consensus       221 ~~~~~~~~  228 (404)
                      |+...+.+
T Consensus        93 ~~~al~l~  100 (356)
T PLN03088         93 LEKGASLA  100 (356)
T ss_pred             HHHHHHhC
Confidence            77777653

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.67  E-value=0.0021  Score=51.25  Aligned_cols=94  Identities=17%  Similarity=0.033  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCC--CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI--DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM  240 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  240 (404)
                      ...|..+...+...|++++|+..|+........+  ...++..+...|...|++++|...++...... +....++..+.
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            3456666666777777777777777776553222  23466777777777777777777777766543 33344555555


Q ss_pred             HHHH-------HcCCHHHHHHHHH
Q 015590          241 HGLC-------EKGNVEEAFGLLE  257 (404)
Q Consensus       241 ~~~~-------~~~~~~~A~~~~~  257 (404)
                      ..+.       ..|++++|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            5555       5555554444443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.66  E-value=0.00017  Score=49.98  Aligned_cols=20  Identities=25%  Similarity=0.393  Sum_probs=7.8

Q ss_pred             HHHHHHhcCChHHHHHHHHH
Q 015590          204 LLKGLCENGNLEAAFYVLDE  223 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~  223 (404)
                      +..+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            33333334444444433333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.65  E-value=0.0053  Score=59.99  Aligned_cols=182  Identities=15%  Similarity=0.097  Sum_probs=114.0

Q ss_pred             CCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .+...|+..|-+..+.+  |+ ...|..|...|....+...|.+.|+...+.. +.|........+.|++..+++.|..+
T Consensus       472 K~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hhHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHH
Confidence            44666666666655533  33 3467777777777777777888887777664 45666777777888888888888777


Q ss_pred             HHHchhCCCCCcHHHHHH--HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          221 LDEFPKQNCEPNVRTYST--LMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~--li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      .-...+.. +.-...+|.  .--.|.+.++..+|..-|+......++ |...|..+..+|..+|.+..|.++|.+.... 
T Consensus       549 ~l~~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L-  625 (1238)
T KOG1127|consen  549 CLRAAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL-  625 (1238)
T ss_pred             HHHHhhhc-hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc-
Confidence            33322221 112222222  233455667777777777777665444 6677788888888888888888888777655 


Q ss_pred             CCCChhhHHHHHH--HHHhcCChhHHHHHHHHHHH
Q 015590          299 CYPNSASYQEVLY--GLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       299 ~~p~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~  331 (404)
                       +|+. +|...-.  .-+..|.+.+|+..++....
T Consensus       626 -rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  626 -RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             3432 2222222  23556777777777776653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.64  E-value=0.0014  Score=50.38  Aligned_cols=94  Identities=6%  Similarity=-0.054  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHH
Q 015590           94 YTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL  173 (404)
Q Consensus        94 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  173 (404)
                      .-.+...+...|++++|.++|+.+...+   |.+..+|.-+...+...|++++|+..|......+ +-|+..+-.+..++
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~D---p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~  113 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYD---AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC---cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            3344444455555555555555554333   3344444444444444555555555555554433 12344455555555


Q ss_pred             HhcCcHhHHHHHHHHHHH
Q 015590          174 VSAKLYGEIQGIYTSAAK  191 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~  191 (404)
                      ...|+.+.|.+.|+..+.
T Consensus       114 L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        114 LACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.63  E-value=0.0017  Score=58.57  Aligned_cols=92  Identities=14%  Similarity=0.031  Sum_probs=75.7

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ...+...|++++|++.|+++++.. +.+...|..+..+|.+.|++++|...++...+.. +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            455667889999999999988875 5567788888888899999999999998888775 55677888888888899999


Q ss_pred             HHHHHHHHHHHHCC
Q 015590          250 EEAFGLLERMESEG  263 (404)
Q Consensus       250 ~~A~~~~~~m~~~~  263 (404)
                      ++|...|++..+..
T Consensus        87 ~eA~~~~~~al~l~  100 (356)
T PLN03088         87 QTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999998888763

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.61  E-value=0.0038  Score=47.99  Aligned_cols=93  Identities=13%  Similarity=-0.045  Sum_probs=56.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQG  282 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  282 (404)
                      .+...+...|++++|.++|+-+.... +-+..-|-.|...+-..|++++|+..|.......+. |+..+-.+..++...|
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~lG  117 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHcC
Confidence            34444555666666666666665554 444555556666666666666666666666655433 5556666666666666


Q ss_pred             CHHHHHHHHHHHhhC
Q 015590          283 KVEEGMKLLERMKGK  297 (404)
Q Consensus       283 ~~~~a~~~~~~m~~~  297 (404)
                      +.+.|.+.|+.....
T Consensus       118 ~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        118 NVCYAIKALKAVVRI  132 (157)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            666666666655544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.60  E-value=0.0022  Score=51.17  Aligned_cols=65  Identities=12%  Similarity=0.007  Sum_probs=36.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          233 VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA--DTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       233 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|..+...+...|++++|+..|++.......|  ...+|..+...+...|+.++|+..++.....
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3445555555666666666666666665442221  1235555666666666666666666665544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.60  E-value=0.0055  Score=57.87  Aligned_cols=144  Identities=12%  Similarity=-0.040  Sum_probs=94.3

Q ss_pred             CCCcHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC--------CCHHHHHHHHHHHh
Q 015590          229 CEPNVRTYSTLMHGLCEKG-----NVEEAFGLLERMESEGIDADTVTFNILISGLRKQ--------GKVEEGMKLLERMK  295 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~-----~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------g~~~~a~~~~~~m~  295 (404)
                      .+.+...|...+.+.....     +.++|..+|++..+.... ....|..+..++...        ++...+.+...+..
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ldP~-~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSEPD-FTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            3667788888888754432     266888888888877322 233444333333221        12233444444433


Q ss_pred             hC-CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 015590          296 GK-GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG  374 (404)
Q Consensus       296 ~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  374 (404)
                      .. ....+...|..+.-.....|++++|...++++.+.  .|+...|..+...+...|+.++|.+.+++..  .+.|...
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~--~L~P~~p  487 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAF--NLRPGEN  487 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--hcCCCCc
Confidence            32 12334567777766666789999999999999885  4788888888899999999999999998887  4556555


Q ss_pred             hHH
Q 015590          375 MWR  377 (404)
Q Consensus       375 ~~~  377 (404)
                      +|.
T Consensus       488 t~~  490 (517)
T PRK10153        488 TLY  490 (517)
T ss_pred             hHH
Confidence            544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.59  E-value=0.00019  Score=49.71  Aligned_cols=16  Identities=44%  Similarity=0.569  Sum_probs=5.9

Q ss_pred             HHHHcCCCHHHHHHHH
Q 015590          276 SGLRKQGKVEEGMKLL  291 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~  291 (404)
                      .+|.+.|++++|..++
T Consensus        33 ~~~~~~~~y~~A~~~~   48 (84)
T PF12895_consen   33 QCYFQQGKYEEAIELL   48 (84)
T ss_dssp             HHHHHTTHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            3333333333333333

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.58  E-value=0.0049  Score=60.18  Aligned_cols=185  Identities=10%  Similarity=-0.018  Sum_probs=118.7

Q ss_pred             ChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHH
Q 015590           70 DPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIE  149 (404)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  149 (404)
                      +...|+..|-+.++..  +.-...|..|...|+...+..+|.+.|+..-+.+   +++...+..+...+....+++.|..
T Consensus       473 ~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD---atdaeaaaa~adtyae~~~we~a~~  547 (1238)
T KOG1127|consen  473 NSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD---ATDAEAAAASADTYAEESTWEEAFE  547 (1238)
T ss_pred             hHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---chhhhhHHHHHHHhhccccHHHHHH
Confidence            3556666666655432  2224567888888888888888888888876554   4455455444444444888888888


Q ss_pred             HHhhcccCCC-CccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          150 TLFDMPSYNC-WPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       150 ~~~~m~~~~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      +.-..-+... ..-...|....-.|.+.++..++..-|+...+.. |.|...|..+..+|.++|++..|.++|......+
T Consensus       548 I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~Lr  626 (1238)
T KOG1127|consen  548 ICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLR  626 (1238)
T ss_pred             HHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcC
Confidence            8443333210 0011233334445677888888888888887765 6688888999999999999999999998877653


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                       |.+...---..-.-+..|.+.+|+..+.....
T Consensus       627 -P~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  627 -PLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -cHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             22222211222334667888888888776643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.57  E-value=0.0051  Score=49.23  Aligned_cols=91  Identities=14%  Similarity=0.083  Sum_probs=62.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN--VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNIL  274 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l  274 (404)
                      ....+..+...|...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++....... +...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            344567777778888888888888888775432221  356777888888888888888888887765322 45556666


Q ss_pred             HHHHHcCCCHHHHH
Q 015590          275 ISGLRKQGKVEEGM  288 (404)
Q Consensus       275 i~~~~~~g~~~~a~  288 (404)
                      ...+...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            66676666654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.53  E-value=0.008  Score=56.81  Aligned_cols=63  Identities=13%  Similarity=-0.006  Sum_probs=37.8

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      +...|.++.-.+...|++++|...+++....+  |+...|..+...+...|+.++|.+.+++...
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33455555444445566666666666666653  4555666666666666666666666666654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.53  E-value=0.056  Score=47.73  Aligned_cols=140  Identities=13%  Similarity=0.094  Sum_probs=99.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL  313 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  313 (404)
                      .+.+..|.-+...|+...|.++-.+..    .||..-|-..+.+++..++|++-.++...   .   -.+.-|..++.+|
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~  247 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEAC  247 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHH
Confidence            455666777788899888888876663    46888999999999999999988876543   1   1457889999999


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchh
Q 015590          314 LDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRV  393 (404)
Q Consensus       314 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~  393 (404)
                      .+.|...+|..++..+.          +..-+..|.+.|++.+|.+...+..      |...+..+...+....+...+.
T Consensus       248 ~~~~~~~eA~~yI~k~~----------~~~rv~~y~~~~~~~~A~~~A~~~k------d~~~L~~i~~~~~~~~~~~~~~  311 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKIP----------DEERVEMYLKCGDYKEAAQEAFKEK------DIDLLKQILKRCPGNNDQLIAD  311 (319)
T ss_pred             HHCCCHHHHHHHHHhCC----------hHHHHHHHHHCCCHHHHHHHHHHcC------CHHHHHHHHHHCCCCChHHHHH
Confidence            99999999999888731          2445778899999999988766543      4445555555444443333334


Q ss_pred             hHHHhh
Q 015590          394 YVTETV  399 (404)
Q Consensus       394 ~~~~~~  399 (404)
                      .+..++
T Consensus       312 ~i~~~~  317 (319)
T PF04840_consen  312 KIEQML  317 (319)
T ss_pred             HHHHHH
Confidence            444443

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

>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=97.51  E-value=0.00083  Score=44.25  Aligned_cols=61  Identities=18%  Similarity=0.231  Sum_probs=38.4

Q ss_pred             HhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHH
Q 015590          174 VSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYS  237 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  237 (404)
                      .+.|++++|+++|+.+.+.. |-+..+...+..+|.+.|++++|..+++.+...  .|+...|.
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~   62 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQ   62 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHH
Confidence            35667777777777776654 446666666777777777777777777777665  34433333

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.50  E-value=0.0095  Score=44.04  Aligned_cols=87  Identities=22%  Similarity=0.140  Sum_probs=39.7

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHcCCCCC--HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc----HHHHHHHHHHHH
Q 015590          171 NLLVSAKLYGEIQGIYTSAAKLGVEID--ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN----VRTYSTLMHGLC  244 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~  244 (404)
                      .++-..|+.++|+.+|++....|...+  ...+-.+...+...|++++|..+|++.....  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344445555555555555555543322  2233344445555555555555555544331  21    111112223444


Q ss_pred             HcCCHHHHHHHHHHH
Q 015590          245 EKGNVEEAFGLLERM  259 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m  259 (404)
                      ..|+.++|+..+-..
T Consensus        87 ~~gr~~eAl~~~l~~  101 (120)
T PF12688_consen   87 NLGRPKEALEWLLEA  101 (120)
T ss_pred             HCCCHHHHHHHHHHH
Confidence            555555555555443

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.40  E-value=0.13  Score=49.17  Aligned_cols=292  Identities=12%  Similarity=0.068  Sum_probs=169.7

Q ss_pred             CHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccC-CCChHHHHHHHH
Q 015590           57 SPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLC-RFSDGFFYNVIK  135 (404)
Q Consensus        57 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~l~  135 (404)
                      +-..+|.-+...+.+..|+++-.++...  .......|......+.+..+... .++++.+.+.-.. ..+...+..+..
T Consensus       439 ~~~~vi~Rl~~r~~Y~vaIQva~~l~~p--~~~~~~Vl~~Wa~~kI~~~d~~d-~~vld~I~~kls~~~~~~iSy~~iA~  515 (829)
T KOG2280|consen  439 SEEVVIDRLVDRHLYSVAIQVAKLLNLP--ESQGDRVLLEWARRKIKQSDKMD-EEVLDKIDEKLSAKLTPGISYAAIAR  515 (829)
T ss_pred             chhhhhHHHHhcchhHHHHHHHHHhCCc--cccccHHHHHHHHHHHhccCccc-hHHHHHHHHHhcccCCCceeHHHHHH
Confidence            3456888888899999999999888322  22226778888887777643221 2233333222111 123344555555


Q ss_pred             HHHhhcCCHHHHHHHHhhcccCCCC----ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC-----------CCCCHhH
Q 015590          136 IYGNMAGRISKAIETLFDMPSYNCW----PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG-----------VEIDACC  200 (404)
Q Consensus       136 ~~~~~~g~~~~A~~~~~~m~~~~~~----p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-----------~~~~~~~  200 (404)
                      ..+. +|+.+.|..+++.=...+..    .+..-+...+.-+.+.|+.+....++-.+...-           .+.....
T Consensus       516 ~Ay~-~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~l  594 (829)
T KOG2280|consen  516 RAYQ-EGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSL  594 (829)
T ss_pred             HHHh-cCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHH
Confidence            5555 99999999998765443311    122335556677788888888877776665431           1222222


Q ss_pred             HHHHHHH--------HHhcCChHHHHHHHH--Hch----hCCCCCcHHHHHHHHHHHHHcCC----------HHHHHHHH
Q 015590          201 LNILLKG--------LCENGNLEAAFYVLD--EFP----KQNCEPNVRTYSTLMHGLCEKGN----------VEEAFGLL  256 (404)
Q Consensus       201 ~~~li~~--------~~~~g~~~~a~~~~~--~~~----~~~~~~~~~~~~~li~~~~~~~~----------~~~A~~~~  256 (404)
                      |.-+++-        +...++-.++...|.  ...    ..|..|+   .....+.+.+...          ..+-+.+.
T Consensus       595 Y~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ  671 (829)
T KOG2280|consen  595 YRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKALEDQMKLLKLQ  671 (829)
T ss_pred             HHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHH
Confidence            3222220        111122122222111  100    0111222   2233344444333          11222233


Q ss_pred             HHHHH-CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 015590          257 ERMES-EGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS  335 (404)
Q Consensus       257 ~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  335 (404)
                      +.+.. .|......+.+--+.-+...|+..+|.++-.+.+    -||...|..=+.+++..++|++-+++-+...     
T Consensus       672 ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk-----  742 (829)
T KOG2280|consen  672 RTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK-----  742 (829)
T ss_pred             HHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC-----
Confidence            33322 2334445556666777778899999999888776    5688889888999999999988777766553     


Q ss_pred             CCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          336 PSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       336 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                       ++.-|.-...+|.+.|+.++|.+++.+..
T Consensus       743 -sPIGy~PFVe~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  743 -SPIGYLPFVEACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             -CCCCchhHHHHHHhcccHHHHhhhhhccC
Confidence             24557778899999999999999887764

>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=97.34  E-value=0.00075  Score=44.46  Aligned_cols=51  Identities=25%  Similarity=0.350  Sum_probs=23.9

Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .|++++|.+.|+.+.+.. +-+...+..+..+|.+.|++++|..+++++...
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555555555544433 334444444555555555555555555544443

...

>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=97.32  E-value=0.0077  Score=46.69  Aligned_cols=57  Identities=28%  Similarity=0.397  Sum_probs=30.3

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      ..++..+...|+++.|..+...+.... |.|...|..+|.+|...|+..+|.+.|+++
T Consensus        66 ~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~  122 (146)
T PF03704_consen   66 ERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERY  122 (146)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHH
Confidence            344445555556666666555555544 445555566666666666666666555554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.30  E-value=0.17  Score=48.11  Aligned_cols=114  Identities=13%  Similarity=0.080  Sum_probs=58.3

Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhC----CCCCCh----hhHHHH-HHHHH----------hcCChhHHHHHHHHHHHC---
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGK----GCYPNS----ASYQEV-LYGLL----------DKKRFPEAKELVGRMICE---  332 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~----~~~p~~----~~~~~l-i~~~~----------~~g~~~~a~~~~~~~~~~---  332 (404)
                      |..+.+.|..-.|-+++.+|.+.    +.+|-.    .+..++ +.-+.          ..|..++|..+++.-...   
T Consensus       930 Ie~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~lles~~l~~~~ 1009 (1189)
T KOG2041|consen  930 IEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATDLLESGLLAEQS 1009 (1189)
T ss_pred             HHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhhhhhhhhhhhHH
Confidence            44555667666666777666544    222211    111111 11111          246666666655433211   


Q ss_pred             ----CCCCCHHHHH--HHHHHHHcCCChHHHHHHHHHHHHC-CCCCCHHhHHHHHHhhccCCC
Q 015590          333 ----RMSPSFVSYK--KLIHGLCNQKLVEDVDWVLKKMVQQ-GFVPRMGMWREIVGCVTFGKD  388 (404)
Q Consensus       333 ----~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~  388 (404)
                          +.-.....|.  .|.+--...|.++.|.+.--.+.+- ++-|....|..|.-+.+..+.
T Consensus      1010 ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~ra 1072 (1189)
T KOG2041|consen 1010 RILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRA 1072 (1189)
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhh
Confidence                0111223333  4445556678888888766555543 677888888776654444333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.29  E-value=0.0015  Score=42.52  Aligned_cols=53  Identities=25%  Similarity=0.359  Sum_probs=24.5

Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      .+.+.|++++|.+.|+++.+.. +-+...+..+...+.+.|++++|...|+++.
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444444555555555444443 3344444444444445555555554444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.28  E-value=0.016  Score=42.91  Aligned_cols=99  Identities=16%  Similarity=0.045  Sum_probs=67.4

Q ss_pred             cCCHHHHHHHHhhcccCCCCcc--HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCC---CHhHHHHHHHHHHhcCChH
Q 015590          141 AGRISKAIETLFDMPSYNCWPS--VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEI---DACCLNILLKGLCENGNLE  215 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~~~~~g~~~  215 (404)
                      .|+.++|+.+|++....|+...  ...+-.+...+...|++++|..+++...... +.   +......+..++...|+.+
T Consensus        14 ~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L~~~gr~~   92 (120)
T PF12688_consen   14 LGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALALYNLGRPK   92 (120)
T ss_pred             cCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHHHHCCCHH
Confidence            7888888888888888775443  2356667788888899999999998887652 21   2233333445677788999


Q ss_pred             HHHHHHHHchhCCCCCcHHHHHHHHHHHH
Q 015590          216 AAFYVLDEFPKQNCEPNVRTYSTLMHGLC  244 (404)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~  244 (404)
                      +|..++-....    ++...|.--|..|.
T Consensus        93 eAl~~~l~~la----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   93 EALEWLLEALA----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            88888776553    33335555555554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.24  E-value=0.12  Score=45.16  Aligned_cols=92  Identities=18%  Similarity=0.172  Sum_probs=49.6

Q ss_pred             HHHHHhc-CChHHHHHHHHHchh----CCCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-----CCHH-HH
Q 015590          205 LKGLCEN-GNLEAAFYVLDEFPK----QNCEPN--VRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-----ADTV-TF  271 (404)
Q Consensus       205 i~~~~~~-g~~~~a~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-----p~~~-~~  271 (404)
                      ...|-.. |++++|.+.|++..+    .| .+.  ...+..+...+.+.|++++|..+|++.......     .+.. .|
T Consensus       121 A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~  199 (282)
T PF14938_consen  121 AEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYF  199 (282)
T ss_dssp             HHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHH
Confidence            3444444 667777776666543    12 111  234555667777788888888888777654322     1111 22


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          272 NILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       272 ~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...+-.+...|++..|.+.+++....
T Consensus       200 l~a~l~~L~~~D~v~A~~~~~~~~~~  225 (282)
T PF14938_consen  200 LKAILCHLAMGDYVAARKALERYCSQ  225 (282)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHGTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            22333455567777777777777655

>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=97.24  E-value=0.012  Score=45.69  Aligned_cols=72  Identities=18%  Similarity=0.226  Sum_probs=52.2

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH-----CCCCCCHHhHH
Q 015590          305 SYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-----QGFVPRMGMWR  377 (404)
Q Consensus       305 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~~  377 (404)
                      +...++..+...|++++|.++.+.+.... +-|...|..+|.+|...|+..+|.++|+++.+     .|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            45567777888999999999999998763 55788999999999999999999999987753     38888887643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.23  E-value=0.0054  Score=51.84  Aligned_cols=102  Identities=19%  Similarity=0.184  Sum_probs=74.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChh
Q 015590          241 HGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFP  320 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  320 (404)
                      +-..+.+++++|+..|.+..+.... |.+-|..=..+|++.|.++.|++=.+.....+. -...+|..|-.+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp-~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSIDP-HYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHccCcHH
Confidence            4466778888888888888876444 667777778888888888888877777766521 13467888888888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          321 EAKELVGRMICERMSPSFVSYKKLIH  346 (404)
Q Consensus       321 ~a~~~~~~~~~~~~~p~~~~~~~li~  346 (404)
                      +|++.|++..+  +.|+-.+|..=+.
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            88888888776  5677666655443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.18  E-value=0.055  Score=44.59  Aligned_cols=52  Identities=15%  Similarity=0.071  Sum_probs=26.0

Q ss_pred             cCCHHHHHHHHhhcccCC--CCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc
Q 015590          141 AGRISKAIETLFDMPSYN--CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                      .|++++|.+.|+.+...-  -+--....-.++.++.+.|+++.|...++..++.
T Consensus        18 ~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   18 QGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             CT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            566666666666655421  0011223444555566666666666666665554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.18  E-value=0.064  Score=50.34  Aligned_cols=54  Identities=13%  Similarity=0.007  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      +...+..-+.+...+.-|-++|.+|-..         ..+++.....+++++|..+-++..+.
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~  802 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF  802 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccc
Confidence            3333444444555566677777666421         24556666777777777776665544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.17  E-value=0.028  Score=46.70  Aligned_cols=129  Identities=13%  Similarity=0.050  Sum_probs=60.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-----H
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI-----S  276 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li-----~  276 (404)
                      +.+++...-.|.+.-....+++..+..-+.+....+.+.+.-.+.|+.+.|...|++..+..-+.|..+++.++     .
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            34444444445555555555555554434455555555555555666666666665554433333333333222     2


Q ss_pred             HHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          277 GLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      .|.-.+++..|...|.+....+.. |+...|.=.-+..-.|+...|++.++.|..
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~  314 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQ  314 (366)
T ss_pred             heecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhc
Confidence            233344555555555555544211 222222222222334555555555555554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.15  E-value=0.071  Score=43.92  Aligned_cols=171  Identities=15%  Similarity=0.107  Sum_probs=90.2

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCC--CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGV--EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      +-.....+...|++++|.+.|+.+...-.  +--....-.++.++.+.|+++.|...+++..+.-..-....+...+.+.
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            33345556678888888888888887621  1223345567778888888888888888877652111112222223222


Q ss_pred             HHcCC-------------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 015590          244 CEKGN-------------VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVL  310 (404)
Q Consensus       244 ~~~~~-------------~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  310 (404)
                      +.-..             ..+|...               +..++.-|=...-..+|...+..+.+.    =...--.+.
T Consensus        88 ~~~~~~~~~~~~~~D~~~~~~A~~~---------------~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia  148 (203)
T PF13525_consen   88 SYYKQIPGILRSDRDQTSTRKAIEE---------------FEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIA  148 (203)
T ss_dssp             HHHHHHHHHH-TT---HHHHHHHHH---------------HHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHhCccchhcccChHHHHHHHHH---------------HHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence            21111             1222333               333444444445555555555444432    011112245


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHcCCChHHH
Q 015590          311 YGLLDKKRFPEAKELVGRMICERMSPSF----VSYKKLIHGLCNQKLVEDV  357 (404)
Q Consensus       311 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~a  357 (404)
                      ..|.+.|.+..|..-++.+++.  -|+.    .....++.+|.+.|..+.+
T Consensus       149 ~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  149 RFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            6677778888888888877765  2332    3445666777777776643

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.14  E-value=0.0023  Score=41.67  Aligned_cols=54  Identities=20%  Similarity=0.235  Sum_probs=23.9

Q ss_pred             HHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          277 GLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      .+...|++++|...|++..+.. +-+...+..+..++...|++++|...|+++.+
T Consensus         6 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    6 ALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444444444444444442 11334444444444444555555555444443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.12  E-value=0.0093  Score=50.47  Aligned_cols=84  Identities=10%  Similarity=-0.028  Sum_probs=36.7

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .+++++|+..|.+..+.. +.|.+-|..-..+|.+.|.++.|++-.+..+... +.-..+|..|..+|...|++++|.+.
T Consensus        94 ~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~~a  171 (304)
T KOG0553|consen   94 NKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAIEA  171 (304)
T ss_pred             hhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHHHH
Confidence            444444444444444432 1233334444444444444444444444444332 22233444444444444444444444


Q ss_pred             HHHchh
Q 015590          221 LDEFPK  226 (404)
Q Consensus       221 ~~~~~~  226 (404)
                      |+...+
T Consensus       172 ykKaLe  177 (304)
T KOG0553|consen  172 YKKALE  177 (304)
T ss_pred             HHhhhc
Confidence            444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.10  E-value=0.18  Score=44.60  Aligned_cols=111  Identities=19%  Similarity=0.220  Sum_probs=90.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL  278 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  278 (404)
                      .+.+.-|.-+...|+...|.++-.+..    -|+..-|-..+.+++..++|++-..+-..      +-++..|..++.+|
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            355566777888999999999988886    68999999999999999999987775432      12568899999999


Q ss_pred             HcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          279 RKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      .+.|+..+|..+...+          .+..-+..|.+.|++.+|.+.-.+.
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            9999999999988772          2245678889999999998776544

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

>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=97.08  E-value=0.016  Score=43.35  Aligned_cols=95  Identities=11%  Similarity=0.132  Sum_probs=63.1

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIH  346 (404)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~  346 (404)
                      |..++..++.++++.|+.+....+.+..-  |+.++...         ..+.         --......|+..+..+++.
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            34566677777777777776666665443  22221100         0000         1112246788888889999


Q ss_pred             HHHcCCChHHHHHHHHHHHHC-CCCCCHHhHHHHHH
Q 015590          347 GLCNQKLVEDVDWVLKKMVQQ-GFVPRMGMWREIVG  381 (404)
Q Consensus       347 ~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~  381 (404)
                      +|+..|++..|.++.+...+. ++..+..+|..|+.
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            999899999999999888876 88888888888887

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.06  E-value=0.0031  Score=41.58  Aligned_cols=58  Identities=16%  Similarity=0.118  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC-ChHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG-NLEAAFYVLDE  223 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~  223 (404)
                      +|..+...+...|++++|+..|++..+.. +.+...+..+..+|.+.| ++++|.+.++.
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            33333444444444444444444444332 223333333444444443 34444443333

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.04  E-value=0.15  Score=42.61  Aligned_cols=154  Identities=18%  Similarity=0.075  Sum_probs=112.8

Q ss_pred             HHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHH
Q 015590          144 ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDE  223 (404)
Q Consensus       144 ~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  223 (404)
                      .+..+++|++-.       ..+.+.+++.+.-.|.+.-....+...++...+.++.....|.+.-...||.+.|...|++
T Consensus       165 ~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~  237 (366)
T KOG2796|consen  165 EESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQD  237 (366)
T ss_pred             hhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            355555655422       3456778888888899999999999999987677888999999999999999999999998


Q ss_pred             chhCCCCCcHHHHHHH-----HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          224 FPKQNCEPNVRTYSTL-----MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       224 ~~~~~~~~~~~~~~~l-----i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      ..+..-..|..+.+.+     ...|.-.+++..|...|.+....+.. |++.-|.-.-+....|+...|.+..+.|.+. 
T Consensus       238 vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~-  315 (366)
T KOG2796|consen  238 VEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ-  315 (366)
T ss_pred             HHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc-
Confidence            8765434454444443     34566677888999999888776433 5555554444445569999999999999988 


Q ss_pred             CCCChhhHH
Q 015590          299 CYPNSASYQ  307 (404)
Q Consensus       299 ~~p~~~~~~  307 (404)
                       .|...+-+
T Consensus       316 -~P~~~l~e  323 (366)
T KOG2796|consen  316 -DPRHYLHE  323 (366)
T ss_pred             -CCccchhh
Confidence             44444433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.067  Score=45.62  Aligned_cols=101  Identities=11%  Similarity=0.051  Sum_probs=48.7

Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC---CCHHHHHHHHHHHhhCCCCCChhhH
Q 015590          230 EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ---GKVEEGMKLLERMKGKGCYPNSASY  306 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~~~p~~~~~  306 (404)
                      +-|...|-.|...|.+.|+.+.|..-|.+..+... ++...+..+..++...   ....++.++|+++..... -|..+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g-~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~-~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAG-DNPEILLGLAEALYYQAGQQMTAKARALLRQALALDP-ANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCC-ccHHHH
Confidence            44555555555555555555555555555544311 1333333333332221   123455555555555421 133444


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      ..|...+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            44444555556666666666655554

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.01  E-value=0.004  Score=41.03  Aligned_cols=65  Identities=20%  Similarity=0.171  Sum_probs=46.3

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHC
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG-NVEEAFGLLERMESE  262 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~A~~~~~~m~~~  262 (404)
                      +..+|..+...+...|++++|+..|++..+.+ +.+...|..+..+|.+.| ++++|+..|++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            34566777777777777777777777777665 556667777777777777 577777777766543

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.92  E-value=0.023  Score=48.63  Aligned_cols=88  Identities=14%  Similarity=0.056  Sum_probs=36.2

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCCh
Q 015590          244 CEKGNVEEAFGLLERMESEGIDAD--TVTFNILISGLRKQGKVEEGMKLLERMKGK--GCYPNSASYQEVLYGLLDKKRF  319 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~  319 (404)
                      .+.|++++|...|+.+.+......  ...+-.+...|...|++++|...|+.+.+.  +.......+-.+...+...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            334455555555555444321100  123333444444445555555555544433  1011122233333334444555


Q ss_pred             hHHHHHHHHHHH
Q 015590          320 PEAKELVGRMIC  331 (404)
Q Consensus       320 ~~a~~~~~~~~~  331 (404)
                      ++|.++++.+.+
T Consensus       234 ~~A~~~~~~vi~  245 (263)
T PRK10803        234 AKAKAVYQQVIK  245 (263)
T ss_pred             HHHHHHHHHHHH
Confidence            555555554444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.92  E-value=0.057  Score=46.03  Aligned_cols=101  Identities=15%  Similarity=0.082  Sum_probs=63.8

Q ss_pred             CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHHH
Q 015590          195 EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG---NVEEAFGLLERMESEGIDADTVTF  271 (404)
Q Consensus       195 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~~~~p~~~~~  271 (404)
                      |-|...|-.|...|...|+.+.|..-|....+.. +++...+..+..++....   ...++..+|+++...... |..+.
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            5566677777777777777777777777666543 455555555555544332   345667777777665333 45555


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          272 NILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       272 ~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ..|...+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            55666667777777777777777766

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.90  E-value=0.023  Score=48.59  Aligned_cols=97  Identities=10%  Similarity=0.107  Sum_probs=75.4

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh----hhHHHHHHHHHhcCChhHHHHHHHHHHHCC--CCCCHHHHH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS----ASYQEVLYGLLDKKRFPEAKELVGRMICER--MSPSFVSYK  342 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~p~~~~~~  342 (404)
                      ..|...+....+.|++++|...|+.+.+.  .|+.    ..+-.+...|...|++++|...|+.+.+.-  -+.....+.
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            44555555556679999999999999987  3443    567788889999999999999999998751  112344555


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          343 KLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       343 ~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      .+...+...|+.++|..+|+++++.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            5677888999999999999999854

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.78  E-value=0.56  Score=45.16  Aligned_cols=112  Identities=16%  Similarity=0.069  Sum_probs=69.9

Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHH
Q 015590          232 NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLY  311 (404)
Q Consensus       232 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  311 (404)
                      ..-+.+--+.-+...|+..+|.++-.+.+    -||...|-.=+.+++..+++++-+++-+.+..      +.-|.-.+.
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            33444555555666777777777666554    35777777777777777777766666554441      344555667


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHH
Q 015590          312 GLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLK  362 (404)
Q Consensus       312 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  362 (404)
                      +|.+.|+.++|.+++.+...     ..    -...+|.+.|++.+|.++.-
T Consensus       753 ~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  753 ACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             HHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHHHH
Confidence            77777777777777766532     11    34566667777776666543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.74  E-value=0.4  Score=42.99  Aligned_cols=33  Identities=9%  Similarity=-0.028  Sum_probs=26.3

Q ss_pred             CCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          335 SPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       335 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ..|...+.+++.++.-.|+.++|.+..++|.+.
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            345666778888888899999999999988854

>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=96.74  E-value=0.029  Score=41.95  Aligned_cols=27  Identities=7%  Similarity=0.219  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          233 VRTYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       233 ~~~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      ..++.++|.++++.|+.+....+++..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~   28 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSV   28 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHh
Confidence            445566666666666666666665544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.73  E-value=0.21  Score=39.52  Aligned_cols=126  Identities=15%  Similarity=0.103  Sum_probs=56.7

Q ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC-CCChhhHHHH
Q 015590          231 PNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC-YPNSASYQEV  309 (404)
Q Consensus       231 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~l  309 (404)
                      |++..--.+..+..+.|+..+|...|++...--..-|....-.+.++....+++..|...++++.+... .-++.+.-.+
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            344444444555555555555555555544322233444444455555555555555555555544310 0012223334


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHH
Q 015590          310 LYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVD  358 (404)
Q Consensus       310 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  358 (404)
                      ...+...|+...|+..|+.....  .|+...-......+.+.|+.+++.
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHH
Confidence            44455555555555555555543  333333222233344444444433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.73  E-value=0.013  Score=39.02  Aligned_cols=53  Identities=23%  Similarity=0.226  Sum_probs=23.7

Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      |.+.+++++|.++++.+.+.+ |.+...|......+.+.|++++|...|+...+
T Consensus         5 ~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    5 YLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            444444444444444444443 33334444444444444444444444444443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.69  E-value=0.41  Score=42.45  Aligned_cols=287  Identities=15%  Similarity=0.070  Sum_probs=162.4

Q ss_pred             CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--HhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHH
Q 015590           68 LRDPISVISVLNQYSKRKDYNPNEALYTLIINKL--AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRIS  145 (404)
Q Consensus        68 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  145 (404)
                      .|+-..|..+-.+..+.  +..|...+-.++.+-  .-.|+.+.|.+-|+.|....   .....-...+..-.++.|..+
T Consensus        97 AGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dP---EtRllGLRgLyleAqr~Gare  171 (531)
T COG3898          97 AGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDP---ETRLLGLRGLYLEAQRLGARE  171 (531)
T ss_pred             cCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcCh---HHHHHhHHHHHHHHHhcccHH
Confidence            45666676665554321  344555444454433  34578888888888875321   011111111222223367777


Q ss_pred             HHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC-CCCCHh--HHHHHHHHHH---hcCChHHHH
Q 015590          146 KAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG-VEIDAC--CLNILLKGLC---ENGNLEAAF  218 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~~~~--~~~~li~~~~---~~g~~~~a~  218 (404)
                      .|.+.-++....-  |. ...+..++...+..|+|+.|+++.+.-+... +.++..  .-..|+.+-.   -.-+...|.
T Consensus       172 aAr~yAe~Aa~~A--p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar  249 (531)
T COG3898         172 AARHYAERAAEKA--PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASAR  249 (531)
T ss_pred             HHHHHHHHHHhhc--cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHH
Confidence            7777776665432  43 3467778888888888888888887766543 233322  1112222211   112344455


Q ss_pred             HHHHHchhCCCCCcHHHH-HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          219 YVLDEFPKQNCEPNVRTY-STLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~-~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ..-.+..+.  .||.+-- -.-..++.+.|+..++-.+++.+.+....|+.  +  .+..+.+.|+.  +..-+++....
T Consensus       250 ~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a--~lY~~ar~gdt--a~dRlkRa~~L  321 (531)
T COG3898         250 DDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--A--LLYVRARSGDT--ALDRLKRAKKL  321 (531)
T ss_pred             HHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--H--HHHHHhcCCCc--HHHHHHHHHHH
Confidence            444444333  4554332 23346778888888888888888887555543  2  22334455553  23333332222


Q ss_pred             -CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-CCChHHHHHHHHHHHHCCCCC
Q 015590          298 -GCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN-QKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       298 -~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~p  371 (404)
                       .++| +..+...+..+-...|++..|..--+....  ..|....|..|.+.-.. .|+-.+++..+.+.++..-.|
T Consensus       322 ~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         322 ESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             HhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence             2233 446666777777888888888777776655  46777788777765544 488888888888877643333

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.43  Score=42.65  Aligned_cols=85  Identities=12%  Similarity=-0.041  Sum_probs=42.3

Q ss_pred             HcCCCHHHHHHHHHHHhhC---CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHcCC
Q 015590          279 RKQGKVEEGMKLLERMKGK---GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS---YKKLIHGLCNQK  352 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~---~~~li~~~~~~g  352 (404)
                      .+.|++..|.+.|.+....   +..|+...|.....+..+.|+.++|+.--+...+    .|..-   |..-..++...+
T Consensus       260 fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~----iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  260 FKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK----IDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             hhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh----cCHHHHHHHHHHHHHHHHHH
Confidence            4456666666666665543   2334444455555555556666666655555543    22221   111122334455


Q ss_pred             ChHHHHHHHHHHHHC
Q 015590          353 LVEDVDWVLKKMVQQ  367 (404)
Q Consensus       353 ~~~~a~~~~~~m~~~  367 (404)
                      +|++|.+-+++..+.
T Consensus       336 ~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            566666666555543

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.64  E-value=0.064  Score=39.61  Aligned_cols=63  Identities=24%  Similarity=0.257  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      .....+..+...|.-+...+++.++.+.+ .+++...--+..+|.+.|+..++.+++.+.-+.|
T Consensus        88 ~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG  150 (161)
T PF09205_consen   88 YVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhc
Confidence            33444455555555555555555554432 4444555555555555555555555555555544

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.59  E-value=0.26  Score=38.98  Aligned_cols=133  Identities=15%  Similarity=0.041  Sum_probs=79.4

Q ss_pred             CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHH
Q 015590          195 EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-ADTVTFNI  273 (404)
Q Consensus       195 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~~~~~~~  273 (404)
                      .|++..--.|.++..+.|+..+|...|++...--..-|....-.+.++....+++..|...++++.+.... -++.+.-.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            45555556667777777777777777776654333445556666666666777777777777776654210 01223444


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          274 LISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       274 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      +.+.+...|+...|+.-|+.....  .|+...-...-..+.+.|+.+++..-+.++
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            566677777777777777777665  444444333344456666665555444333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.56  E-value=0.031  Score=49.46  Aligned_cols=286  Identities=12%  Similarity=0.015  Sum_probs=131.9

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCH----HHHHHHHHHHHhcCCchHHHHHHHHHH--hccc-CCCCh-HHHHHHH
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNE----ALYTLIINKLAQAKRFDAIEDIMQRIK--VEKL-CRFSD-GFFYNVI  134 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~--~~~~-~~~~~-~~~~~~l  134 (404)
                      .-+++.|+.+..+.+|+.+++..  ..|.    ..|..|..+|.-.+++++|.+++..=.  .+.. ..... ...-++-
T Consensus        25 ERLck~gdcraGv~ff~aA~qvG--TeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLG  102 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVG--TEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLG  102 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhc--chHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhcccccccccc
Confidence            35788999999999999998653  2333    446667777777888899988875411  0000 00000 0111111


Q ss_pred             HHHHhhcCCHHHHHHHHhhc----ccCCCC-ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHH
Q 015590          135 KIYGNMAGRISKAIETLFDM----PSYNCW-PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLC  209 (404)
Q Consensus       135 ~~~~~~~g~~~~A~~~~~~m----~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  209 (404)
                      ..+ +..|.+++|+-.-.+-    .+.|-+ .....+..+.+.|...|.--....-    .+.|-.++.++         
T Consensus       103 Ntl-Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~p----ee~g~f~~ev~---------  168 (639)
T KOG1130|consen  103 NTL-KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAP----EEKGAFNAEVT---------  168 (639)
T ss_pred             chh-hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCCh----hhcccccHHHH---------
Confidence            111 2245555554332211    111100 1123344455555444321100000    00000000000         


Q ss_pred             hcCChHHHHHHHHHc----hhCCC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH----HCCCC-CCHHHHHHHHHHHH
Q 015590          210 ENGNLEAAFYVLDEF----PKQNC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERME----SEGID-ADTVTFNILISGLR  279 (404)
Q Consensus       210 ~~g~~~~a~~~~~~~----~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~----~~~~~-p~~~~~~~li~~~~  279 (404)
                        ..++.|.+.|.+-    .+.|- -.-...|..+-+.|.-.|+++.|+..-+.-.    +-|-+ .....+..+..++.
T Consensus       169 --~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hi  246 (639)
T KOG1130|consen  169 --SALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHI  246 (639)
T ss_pred             --HHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhh
Confidence              0112222222211    11110 0112344445555555566666655443221    11111 12234555666666


Q ss_pred             cCCCHHHHHHHHHHHhh----CC-CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHH
Q 015590          280 KQGKVEEGMKLLERMKG----KG-CYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE-----RMSPSFVSYKKLIHGLC  349 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~----~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p~~~~~~~li~~~~  349 (404)
                      -.|+++.|.+.|+.-..    .| -.....+.-.|...|.-..++.+|+.++.+-...     ...-....+.+|..+|.
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            66777777666654321    11 1123344555666666666677777766543321     11224456677777777


Q ss_pred             cCCChHHHHHHHHHHHH
Q 015590          350 NQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       350 ~~g~~~~a~~~~~~m~~  366 (404)
                      ..|..++|+.+.+.-.+
T Consensus       327 alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  327 ALGEHRKALYFAELHLR  343 (639)
T ss_pred             hhhhHHHHHHHHHHHHH
Confidence            77777777766655443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.52  E-value=0.55  Score=42.49  Aligned_cols=146  Identities=14%  Similarity=0.097  Sum_probs=101.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCC-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH-HHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQN-CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTF-NILI  275 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~-~~li  275 (404)
                      ..+|...++.-.+..-++.|..+|-+..+.| +.+++..++++|..++. |+..-|..+|+--...  .||...| +-.+
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            4567777887777778888888888888887 56788888888887654 6777788888764443  3454444 3456


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGCYPN--SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLC  349 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  349 (404)
                      ..+...++-+.|..+|+....+ +..+  ...|..+|+--..-|++..+..+-++|.+.  .|...+......-|.
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            6667788888888888855443 1112  457888888888888888888887777763  555545444444444

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.51  E-value=0.03  Score=47.02  Aligned_cols=89  Identities=18%  Similarity=0.238  Sum_probs=53.8

Q ss_pred             CCcHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC----------------CHHHHH
Q 015590          230 EPNVRTYSTLMHGLCEK-----GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQG----------------KVEEGM  288 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----------------~~~~a~  288 (404)
                      ..|..+|-+++..+...     +.++-....++.|.+-|+.-|..+|+.|++.+-+..                +-+=+.
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            34555565555555432     445555566666666676667777766666554321                122356


Q ss_pred             HHHHHHhhCCCCCChhhHHHHHHHHHhcCC
Q 015590          289 KLLERMKGKGCYPNSASYQEVLYGLLDKKR  318 (404)
Q Consensus       289 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  318 (404)
                      +++++|...|+.||..+-..|+.++++.+-
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence            677777777777777777777777766554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.48  E-value=0.021  Score=38.00  Aligned_cols=56  Identities=18%  Similarity=0.124  Sum_probs=34.1

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          171 NLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      ..+.+.+++++|.++++.+.... |.+...+.....++.+.|++++|.+.|+...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34555666666666666666654 445555666666666666666666666666554

>PRK15331 chaperone protein SicA; Provisional

Probab=96.42  E-value=0.17  Score=39.35  Aligned_cols=86  Identities=13%  Similarity=-0.081  Sum_probs=44.0

Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGM  288 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  288 (404)
                      ...|++++|..+|.-+.-.+ +-+..-|..|...+-..+++++|+..|......+.. |+..+-....+|...|+.+.|.
T Consensus        48 y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A~  125 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKAR  125 (165)
T ss_pred             HHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHHH
Confidence            34556666666665555443 233444455555555555666666665554333221 3333444445555555555555


Q ss_pred             HHHHHHhh
Q 015590          289 KLLERMKG  296 (404)
Q Consensus       289 ~~~~~m~~  296 (404)
                      ..|....+
T Consensus       126 ~~f~~a~~  133 (165)
T PRK15331        126 QCFELVNE  133 (165)
T ss_pred             HHHHHHHh
Confidence            55555554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.36  E-value=0.3  Score=45.91  Aligned_cols=162  Identities=14%  Similarity=0.045  Sum_probs=82.2

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCCCCh-----HHHHHHHHHHHhh---cCCHHHHHHHHhhcccCCCCccHHHHH
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD-----GFFYNVIKIYGNM---AGRISKAIETLFDMPSYNCWPSVKTFN  167 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~  167 (404)
                      .++...+=.||-+.+.+.+....+.+....+-     ..++..+..++..   ..+.+.|.++++.+.+.=  |+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y--P~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY--PNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC--CCcHHHH
Confidence            44455555556666666655544332111110     1122233333332   455666666666666542  5555443


Q ss_pred             HH-HHHHHhcCcHhHHHHHHHHHHHcC---CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH-
Q 015590          168 LV-LNLLVSAKLYGEIQGIYTSAAKLG---VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-  242 (404)
Q Consensus       168 ~l-l~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-  242 (404)
                      .. .+.+...|++++|++.|+......   -+.....+--+.-.+.-.++|++|...|..+.+.+ .-+...|.-+..+ 
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            32 344555667777777776544211   01222334445555666677777777777776654 3344444443332 


Q ss_pred             HHHcCCH-------HHHHHHHHHHH
Q 015590          243 LCEKGNV-------EEAFGLLERME  260 (404)
Q Consensus       243 ~~~~~~~-------~~A~~~~~~m~  260 (404)
                      +...|+.       ++|..+|.+..
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHH
Confidence            3345555       77777777664

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.32  E-value=0.09  Score=44.31  Aligned_cols=101  Identities=17%  Similarity=0.152  Sum_probs=77.5

Q ss_pred             CCHHHHHHHHHHHHc-----CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc----------------CChhHHHH
Q 015590          266 ADTVTFNILISGLRK-----QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK----------------KRFPEAKE  324 (404)
Q Consensus       266 p~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------------g~~~~a~~  324 (404)
                      -|..+|...+..+..     .+.++-....++.|.+.|+.-|..+|+.|+..+-+-                .+-+-+++
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            366666666666543     466777778888999999999999999999887553                23456899


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCh-HHHHHHHHHHHH
Q 015590          325 LVGRMICERMSPSFVSYKKLIHGLCNQKLV-EDVDWVLKKMVQ  366 (404)
Q Consensus       325 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  366 (404)
                      ++++|...|+.||..+-..+++++.+.+.. .+..++.--|-+
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            999999999999999999999999998863 445555444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.31  E-value=0.67  Score=40.54  Aligned_cols=130  Identities=12%  Similarity=0.149  Sum_probs=80.2

Q ss_pred             hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH--cC----CHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHcCCC-
Q 015590          214 LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE--KG----NVEEAFGLLERMESEGI---DADTVTFNILISGLRKQGK-  283 (404)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~--~~----~~~~A~~~~~~m~~~~~---~p~~~~~~~li~~~~~~g~-  283 (404)
                      +++...+++.|.+.|...+..+|-+.......  ..    ...+|..+|+.|++...   .++..++..++..  ..++ 
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            44566777888888888777666653333322  22    24568888888888754   3455666666554  3333 


Q ss_pred             ---HHHHHHHHHHHhhCCCCCCh--hhHHHHHHHHHhcCC--hhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          284 ---VEEGMKLLERMKGKGCYPNS--ASYQEVLYGLLDKKR--FPEAKELVGRMICERMSPSFVSYKKLI  345 (404)
Q Consensus       284 ---~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~--~~~a~~~~~~~~~~~~~p~~~~~~~li  345 (404)
                         .+.++.+|+.+.+.|+..+.  .....++..+.....  ...+.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence               35677888888887665543  333333333322222  447788888888888888777776554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.23  E-value=0.83  Score=43.32  Aligned_cols=87  Identities=10%  Similarity=0.125  Sum_probs=57.2

Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH------
Q 015590          267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS------  340 (404)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~------  340 (404)
                      +..+...+...+-+...+.-|-++|..|-+.         ..+++.....++|++|..+-+...+  ..||...      
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwL  814 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWL  814 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHh
Confidence            4455555555566677788888999888744         3467778889999999999887765  3444321      


Q ss_pred             -----HHHHHHHHHcCCChHHHHHHHHHH
Q 015590          341 -----YKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       341 -----~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                           |.-.-.+|.+.|+-.+|.++++++
T Consensus       815 AE~DrFeEAqkAfhkAGr~~EA~~vLeQL  843 (1081)
T KOG1538|consen  815 AENDRFEEAQKAFHKAGRQREAVQVLEQL  843 (1081)
T ss_pred             hhhhhHHHHHHHHHHhcchHHHHHHHHHh
Confidence                 222234566666666666666655

>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=96.18  E-value=0.77  Score=39.95  Aligned_cols=62  Identities=11%  Similarity=-0.017  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHhcCcHh---HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          165 TFNLVLNLLVSAKLYG---EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~---~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      ++..++.++...+..+   +|..+.+.+.... +-...++-.-+..+.+.++.+.+.+++.+|...
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            4455556665555433   4444555554332 222344444555555566666666666666654

It is also involved in sporulation [].

>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=96.14  E-value=0.015  Score=39.35  Aligned_cols=61  Identities=13%  Similarity=0.112  Sum_probs=31.4

Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHC--CCC---CC-HHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          305 SYQEVLYGLLDKKRFPEAKELVGRMICE--RMS---PS-FVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       305 ~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~---p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      +++.+...|...|++++|++.+++..+.  ...   |+ ..++..+..+|...|++++|.+++++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555555555666666666665555432  011   11 2345555556666666666666665543

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.05  E-value=0.47  Score=36.33  Aligned_cols=83  Identities=19%  Similarity=0.115  Sum_probs=34.8

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCC
Q 015590          239 LMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKR  318 (404)
Q Consensus       239 li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  318 (404)
                      ++..+.+.+.......+++.+...+. .+....+.++..|++.+ ..+....++.   .   .+.......+..|.+.+.
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~~l   84 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKAKL   84 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHcCc
Confidence            34444444445555555554444432 24444444555544432 2222222221   0   122223334445555555


Q ss_pred             hhHHHHHHHHH
Q 015590          319 FPEAKELVGRM  329 (404)
Q Consensus       319 ~~~a~~~~~~~  329 (404)
                      ++++..++.++
T Consensus        85 ~~~~~~l~~k~   95 (140)
T smart00299       85 YEEAVELYKKD   95 (140)
T ss_pred             HHHHHHHHHhh
Confidence            55555555444

>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=95.98  E-value=0.025  Score=38.24  Aligned_cols=25  Identities=28%  Similarity=0.426  Sum_probs=11.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      +|+.+...|...|++++|+..|++.
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~a   31 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKA   31 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444444444444444443

...

>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=95.94  E-value=0.39  Score=44.62  Aligned_cols=131  Identities=17%  Similarity=0.125  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC  244 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  244 (404)
                      ..+.+++-+.+.|..+.|+++-.+-.            .-.+...++|+++.|.++.++..      +...|..|.+...
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~~~------~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKELD------DPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCCCS------THHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHhcC------cHHHHHHHHHHHH
Confidence            45556666666666666665543221            23344555666666665543332      4456666666666


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHH
Q 015590          245 EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKE  324 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  324 (404)
                      +.|+++-|...|.+..         -|..|+--|.-.|+.+.-.++.+.....|      -++....++.-.|+.+++.+
T Consensus       359 ~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~  423 (443)
T PF04053_consen  359 RQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVD  423 (443)
T ss_dssp             HTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHH
T ss_pred             HcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHH
Confidence            6666666666665543         23444445555666666666555555443      13334444444556655555


Q ss_pred             HHHH
Q 015590          325 LVGR  328 (404)
Q Consensus       325 ~~~~  328 (404)
                      ++.+
T Consensus       424 lL~~  427 (443)
T PF04053_consen  424 LLIE  427 (443)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=95.91  E-value=0.27  Score=38.25  Aligned_cols=93  Identities=13%  Similarity=-0.018  Sum_probs=55.3

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      +..-..++. .|++++|..+|.-+.-.+. -+..-|..|..++-..+++++|...|......+ .-|...+-....+|..
T Consensus        41 Y~~Ay~~y~-~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~  117 (165)
T PRK15331         41 YAHAYEFYN-QGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLL  117 (165)
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHH
Confidence            334444444 6777777777776655431 234445556666666677777777776665544 2344444455666667


Q ss_pred             cCChHHHHHHHHHchh
Q 015590          211 NGNLEAAFYVLDEFPK  226 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~  226 (404)
                      .|+.+.|...|+...+
T Consensus       118 l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        118 MRKAAKARQCFELVNE  133 (165)
T ss_pred             hCCHHHHHHHHHHHHh
Confidence            7777777777766665

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.85  E-value=0.86  Score=39.67  Aligned_cols=151  Identities=11%  Similarity=-0.006  Sum_probs=95.6

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc---CCCCCHhHHHHHHHHHHhcCChHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL---GVEIDACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~~~~~~~~li~~~~~~g~~~~a  217 (404)
                      .|+..+|-..++++.+. .+.|...+...=++|.-.|+...-...++.+...   ++|..+.+-..+.-++..+|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            57777777777777654 3456667777777788888877777777777643   3333344445555566678888888


Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHH
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE---GIDADTVTFNILISGLRKQGKVEEGMKLLER  293 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  293 (404)
                      ++.-++..+.+ +.|.-+-.+....+-.+|+..++.+...+-...   +--.-...|=...-.+...+.++.|+++|+.
T Consensus       195 Ek~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  195 EKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            88888777666 566666667777777788888877765543221   0000112222233334455778888888764

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.85  E-value=1.1  Score=39.14  Aligned_cols=127  Identities=11%  Similarity=0.110  Sum_probs=55.6

Q ss_pred             HHHHHHhhcccCCCCccHHHHHHHHHHHHh--cC----cHhHHHHHHHHHHHcCC---CCCHhHHHHHHHHHHhcCC---
Q 015590          146 KAIETLFDMPSYNCWPSVKTFNLVLNLLVS--AK----LYGEIQGIYTSAAKLGV---EIDACCLNILLKGLCENGN---  213 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~g~---~~~~~~~~~li~~~~~~g~---  213 (404)
                      +.+.+++.|.+.|++.+..+|-+..-....  ..    ...++..+|+.|++...   .++...+..++..  ..++   
T Consensus        80 ~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~  157 (297)
T PF13170_consen   80 EVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEE  157 (297)
T ss_pred             HHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHH
Confidence            344555666666666655554442222222  11    23456666666665531   2333444444333  2222   


Q ss_pred             -hHHHHHHHHHchhCCCCCcHH--HHHHHHHHHHHcCC--HHHHHHHHHHHHHCCCCCCHHHHHHH
Q 015590          214 -LEAAFYVLDEFPKQNCEPNVR--TYSTLMHGLCEKGN--VEEAFGLLERMESEGIDADTVTFNIL  274 (404)
Q Consensus       214 -~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~~~--~~~A~~~~~~m~~~~~~p~~~~~~~l  274 (404)
                       .+.++..|+.+.+.|+..+-.  ..+.++........  ..++.++++.+.+.|+++....|..+
T Consensus       158 l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  158 LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence             234455555555555443322  11222221111111  23455555555555555555544433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.79  E-value=1.3  Score=45.01  Aligned_cols=84  Identities=17%  Similarity=0.231  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChh--hHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSA--SYQEVLYG  312 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~li~~  312 (404)
                      .|.+..+.+.+...+++|.-.|+..-+.         .-.+.+|..+|+|.+|..+...+....   +..  +-..|+.-
T Consensus       941 i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~---de~~~~a~~L~s~ 1008 (1265)
T KOG1920|consen  941 IYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGK---DELVILAEELVSR 1008 (1265)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCH---HHHHHHHHHHHHH
Confidence            3444444455566677776666554321         124566677777777777777665431   211  12456666


Q ss_pred             HHhcCChhHHHHHHHHHH
Q 015590          313 LLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       313 ~~~~g~~~~a~~~~~~~~  330 (404)
                      +...++.-+|-++..+..
T Consensus      1009 L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1009 LVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHcccchhHHHHHHHHh
Confidence            667777777777766664

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.67  E-value=0.51  Score=43.12  Aligned_cols=65  Identities=9%  Similarity=-0.096  Sum_probs=54.5

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH----hHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA----CCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      .+...|+.+..+|.+.|++++|+..|++.++..  |+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356688999999999999999999999988774  442    45888999999999999999999988864

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.66  E-value=0.29  Score=44.58  Aligned_cols=66  Identities=17%  Similarity=0.060  Sum_probs=49.6

Q ss_pred             CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          195 EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNV----RTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       195 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +.+...++.+..+|.+.|++++|...|++..+.+  |+.    .+|..+..+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4456777888888888888888888888877663  442    35777888888888888888888887764

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.53  E-value=2.5  Score=40.74  Aligned_cols=191  Identities=15%  Similarity=0.141  Sum_probs=93.5

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHH-----
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYS-----  237 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-----  237 (404)
                      ......+...+.+.|.-++|.+.|-+   .+ .|.     .-+..|....+|.+|.++-+...    -|.+.+.-     
T Consensus       852 s~llp~~a~mf~svGMC~qAV~a~Lr---~s-~pk-----aAv~tCv~LnQW~~avelaq~~~----l~qv~tliak~aa  918 (1189)
T KOG2041|consen  852 SELLPVMADMFTSVGMCDQAVEAYLR---RS-LPK-----AAVHTCVELNQWGEAVELAQRFQ----LPQVQTLIAKQAA  918 (1189)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHh---cc-CcH-----HHHHHHHHHHHHHHHHHHHHhcc----chhHHHHHHHHHH
Confidence            33445555666666666666655532   22 111     23455666667777766665543    23332221     


Q ss_pred             ---------HHHHHHHHcCCHHHHHHHHHHHHH----CCCCCCHH----HHHHHH-HHH----------HcCCCHHHHHH
Q 015590          238 ---------TLMHGLCEKGNVEEAFGLLERMES----EGIDADTV----TFNILI-SGL----------RKQGKVEEGMK  289 (404)
Q Consensus       238 ---------~li~~~~~~~~~~~A~~~~~~m~~----~~~~p~~~----~~~~li-~~~----------~~~g~~~~a~~  289 (404)
                               --|..+.+.|+.-+|-+++.+|.+    ++.+|-..    ...+++ .-+          -+.|..++|..
T Consensus       919 qll~~~~~~eaIe~~Rka~~~~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~  998 (1189)
T KOG2041|consen  919 QLLADANHMEAIEKDRKAGRHLDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD  998 (1189)
T ss_pred             HHHhhcchHHHHHHhhhcccchhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh
Confidence                     123455666776677777777754    33333221    112211 111          12455666666


Q ss_pred             HHHHHhhCC---C----CCChhhH--HHHHHHHHhcCChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCChHHHHH
Q 015590          290 LLERMKGKG---C----YPNSASY--QEVLYGLLDKKRFPEAKELVGRMICE-RMSPSFVSYKKLIHGLCNQKLVEDVDW  359 (404)
Q Consensus       290 ~~~~m~~~~---~----~p~~~~~--~~li~~~~~~g~~~~a~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~  359 (404)
                      +++...-..   +    --....|  -.|..--...|.++.|++.--.+.+- .+-|....|..+.-+-+....+...-+
T Consensus       999 lles~~l~~~~ri~~n~WrgAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSK 1078 (1189)
T KOG2041|consen  999 LLESGLLAEQSRILENTWRGAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSK 1078 (1189)
T ss_pred             hhhhhhhhhHHHHHHhhhhhHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHH
Confidence            554332110   0    0112333  34444445568888887765554432 356767777766544444444544444


Q ss_pred             HHHHHHH
Q 015590          360 VLKKMVQ  366 (404)
Q Consensus       360 ~~~~m~~  366 (404)
                      .|-++..
T Consensus      1079 AfmkLe~ 1085 (1189)
T KOG2041|consen 1079 AFMKLEA 1085 (1189)
T ss_pred             HHHHHHh
Confidence            4544443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.43  E-value=0.86  Score=34.85  Aligned_cols=43  Identities=21%  Similarity=0.186  Sum_probs=22.4

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      .++..+...+.......+++.+...+ ..+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            44444544555555555555555544 24445555555555543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.42  E-value=0.22  Score=42.68  Aligned_cols=79  Identities=18%  Similarity=0.185  Sum_probs=65.3

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES-----EGIDADTVTFN  272 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~-----~~~~p~~~~~~  272 (404)
                      ..++..++..+..+|+.+.+.+.++++.... +-+...|..+|.+|.+.|+...|+..|+++..     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            3466778888899999999999999998876 77889999999999999999999999988865     47888777666


Q ss_pred             HHHHH
Q 015590          273 ILISG  277 (404)
Q Consensus       273 ~li~~  277 (404)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            55544

>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=95.30  E-value=0.3  Score=45.34  Aligned_cols=159  Identities=13%  Similarity=0.059  Sum_probs=99.2

Q ss_pred             HHHHhcCcHhHHHHHHHHHH-HcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          171 NLLVSAKLYGEIQGIYTSAA-KLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~-~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ....-.++++.+.++.+.-. -..+  +....+.++..+-+.|-.+.|+.+-.+         ..   .-.....+.|+.
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCH
Confidence            33445677887777665111 1122  244577888888888888888877332         21   223455678888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      +.|.++-++.      .+...|..|.......|+++-|++.|.+..+         |..|+-.|.-.|+.+.-.++.+..
T Consensus       335 ~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a  399 (443)
T PF04053_consen  335 DIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIA  399 (443)
T ss_dssp             HHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHH
Confidence            8887765443      3677888888888888999888888876652         455666677788888777777777


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          330 ICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       330 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                      ...|-      ++....++.-.|+.++..+++.+-
T Consensus       400 ~~~~~------~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  400 EERGD------INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             HHTT-------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             HHccC------HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            76552      555666677778888888777653

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.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.14  E-value=2.4  Score=38.23  Aligned_cols=163  Identities=14%  Similarity=0.045  Sum_probs=86.9

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcC---CCCCHhHHHHHHHHHHh---cCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLG---VEIDACCLNILLKGLCE---NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      .++-+|....+++..+++.+.+....   +.....+-....-++.+   .|+.++|++++..+....-.++..+|..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            34445666667777777777666541   11122222233444555   6677777777766433333566666666655


Q ss_pred             HHHH---------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC----HHHHHHHH---H-HHhhCCCC---C
Q 015590          242 GLCE---------KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGK----VEEGMKLL---E-RMKGKGCY---P  301 (404)
Q Consensus       242 ~~~~---------~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~----~~~a~~~~---~-~m~~~~~~---p  301 (404)
                      .|-.         ....++|+..|.+.-+.  .||..+=-.+...+...|.    ..+..++-   . ...+.|..   .
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            5432         11366777777766544  2443332222222222232    11222222   1 22233322   2


Q ss_pred             ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          302 NSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       302 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +--.+.+++.++.-.|+.++|.+..+.|.+.
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            3334567788888899999999999999875

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.08  E-value=1.6  Score=36.30  Aligned_cols=117  Identities=15%  Similarity=0.106  Sum_probs=59.8

Q ss_pred             HcCCHHHHHHHHHHHHHC---CC--CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCCh-hhHHHHHHHHH
Q 015590          245 EKGNVEEAFGLLERMESE---GI--DADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYPNS-ASYQEVLYGLL  314 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~---~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~  314 (404)
                      .+-++++|+++|++...-   +-  +.-...+...-+.+.+...+++|-..+.+-...    .-.++. ..|...|-.+.
T Consensus       122 env~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L  201 (308)
T KOG1585|consen  122 ENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYL  201 (308)
T ss_pred             hcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHh
Confidence            445666666666654321   10  011223444555666666666666555443221    111222 22444555566


Q ss_pred             hcCChhHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHcCCChHHHHHHHH
Q 015590          315 DKKRFPEAKELVGRMICER---MSPSFVSYKKLIHGLCNQKLVEDVDWVLK  362 (404)
Q Consensus       315 ~~g~~~~a~~~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~a~~~~~  362 (404)
                      ...++..|.+.++.--..+   -.-+..+...|+.+|- .|+.+++.+++.
T Consensus       202 ~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl~  251 (308)
T KOG1585|consen  202 YAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVLS  251 (308)
T ss_pred             hHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHHc
Confidence            6667777777777643321   1234556666776664 556666555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.05  E-value=0.82  Score=34.72  Aligned_cols=53  Identities=17%  Similarity=0.065  Sum_probs=21.8

Q ss_pred             hcCcHhHHHHHHHHHHHcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          175 SAKLYGEIQGIYTSAAKLG--VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      +.|++++|.+.|+.+...-  -+-...+--.++.+|.+.|++++|...+++..+.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4444444444444444331  0111223333444444444444444444444443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.04  E-value=1.8  Score=36.36  Aligned_cols=52  Identities=15%  Similarity=0.141  Sum_probs=22.8

Q ss_pred             hcCcHhHHHHHHHHHHHcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchh
Q 015590          175 SAKLYGEIQGIYTSAAKLG--VEIDACCLNILLKGLCENGNLEAAFYVLDEFPK  226 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  226 (404)
                      +.|++++|.+.|+.+....  -+-...+--.++-++.+.++++.|...+++...
T Consensus        46 ~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~   99 (254)
T COG4105          46 QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIR   99 (254)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4455555555555544331  011223333344444455555555555554443

>PRK11906 transcriptional regulator; Provisional

Probab=95.03  E-value=2.1  Score=39.30  Aligned_cols=148  Identities=10%  Similarity=0.053  Sum_probs=87.6

Q ss_pred             CHHHHHHHHhhccc-CCCCccH-HHHHHHHHHHHh---------cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          143 RISKAIETLFDMPS-YNCWPSV-KTFNLVLNLLVS---------AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       143 ~~~~A~~~~~~m~~-~~~~p~~-~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      ..+.|+.+|.+... ..+.|+- ..|..+..++..         ..+..+|.++-+...+.+ +.|......+..+..-.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            45678888888872 1233543 334333322211         224456677777777766 66777777777777777


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-ADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      ++++.|..+|++....+ +....+|........-+|+.++|.+.+++..+..+. .........+..|+..+ .+.|..+
T Consensus       352 ~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~  429 (458)
T PRK11906        352 GQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKL  429 (458)
T ss_pred             cchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHH
Confidence            77888888888877764 444555665566666778888888888875544211 11122223344555544 5566666


Q ss_pred             HHH
Q 015590          291 LER  293 (404)
Q Consensus       291 ~~~  293 (404)
                      |-+
T Consensus       430 ~~~  432 (458)
T PRK11906        430 YYK  432 (458)
T ss_pred             Hhh
Confidence            544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.02  E-value=2.5  Score=39.89  Aligned_cols=161  Identities=21%  Similarity=0.181  Sum_probs=104.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCC-CCCc-----HHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQN-CEPN-----VRTYSTLMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFN  272 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~-----~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~  272 (404)
                      .++...+=.||=+.+++.+.+..+.+ +.-.     ...|..++..++.    ....+.|.++++.+.+.  -|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            45555556688888888877765532 2111     1234444444443    34678899999999887  57776665


Q ss_pred             HH-HHHHHcCCCHHHHHHHHHHHhhCCC---CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH-H
Q 015590          273 IL-ISGLRKQGKVEEGMKLLERMKGKGC---YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIH-G  347 (404)
Q Consensus       273 ~l-i~~~~~~g~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~-~  347 (404)
                      .. .+.+...|++++|.+.|++......   ......+--+...+.-.++|++|.+.|..+.+.. ..+..+|.-+.. +
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH
Confidence            44 4556778999999999997664211   1223445556666777899999999999998753 445556655543 3


Q ss_pred             HHcCCCh-------HHHHHHHHHHHH
Q 015590          348 LCNQKLV-------EDVDWVLKKMVQ  366 (404)
Q Consensus       348 ~~~~g~~-------~~a~~~~~~m~~  366 (404)
                      +...|+.       ++|.++|.+...
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4456777       888888877653

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.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.01  E-value=2  Score=36.83  Aligned_cols=145  Identities=18%  Similarity=0.185  Sum_probs=85.6

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHH
Q 015590          171 NLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVE  250 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  250 (404)
                      ......|++.+|..+|....... +-+...--.+..+|...|+.+.|..++..+...--........+-|..+.+.....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            34556778888888888777664 33455666777888888888888888888765421222222223344444554444


Q ss_pred             HHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC--CCCCChhhHHHHHHHHHhcCChh
Q 015590          251 EAFGLLERMESEGIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGK--GCYPNSASYQEVLYGLLDKKRFP  320 (404)
Q Consensus       251 ~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~  320 (404)
                      +...+-.+....   | |...-..+...+...|+.+.|.+.+-.+.++  |.. |...-..++..+.--|.-+
T Consensus       221 ~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~~D  289 (304)
T COG3118         221 EIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGPAD  289 (304)
T ss_pred             CHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCCCC
Confidence            444444444432   3 4444555666677777777777766665544  322 4455566666665555333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.99  E-value=0.51  Score=39.88  Aligned_cols=97  Identities=15%  Similarity=0.134  Sum_probs=53.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-CCCCC-hhhHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDA--DTVTFNILISGLRKQGKVEEGMKLLERMKGK-GCYPN-SASYQEVL  310 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~-~~~~~~li  310 (404)
                      .|+.-+.. .+.|++.+|...|....+....-  ....+--|...+...|++++|..+|..+.+. +-.|. +..+--|.
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 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            45555544 34555777777777766653220  1122233566666666666666666666654 11111 24455555


Q ss_pred             HHHHhcCChhHHHHHHHHHHHC
Q 015590          311 YGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       311 ~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      ....+.|+.++|..+|+++.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5566666666666666666654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.98  E-value=1.4  Score=34.64  Aligned_cols=138  Identities=9%  Similarity=-0.029  Sum_probs=73.5

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCH-HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNE-ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY  131 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  131 (404)
                      .+...|...+. +++.+.+++|+.-|..+. ..|...-+ -.........+..|+-..|...|+++......|.......
T Consensus        57 ~sgd~flaAL~-lA~~~k~d~Alaaf~~le-ktg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~A  134 (221)
T COG4649          57 KSGDAFLAALK-LAQENKTDDALAAFTDLE-KTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLA  134 (221)
T ss_pred             cchHHHHHHHH-HHHcCCchHHHHHHHHHH-hcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHH
Confidence            33444544443 355677788888888774 33333221 1222333445667777777777777754432221111222


Q ss_pred             HHHHHHH-hhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc
Q 015590          132 NVIKIYG-NMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       132 ~~l~~~~-~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                      .+-..|. ..+|.++......+-+...+-+.....-..|.-+-.+.|++.+|.+.|.++...
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            2222221 126777777766666655443333334455555566777777777777766654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.84  E-value=1.8  Score=38.80  Aligned_cols=96  Identities=14%  Similarity=0.005  Sum_probs=64.0

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      .++..+.-++.+.+++..|++.-+..+..+ ++|+...---..+|...|+++.|+..|+.+.+.. |-|-..-+.++..-
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~-P~Nka~~~el~~l~  335 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE-PSNKAARAELIKLK  335 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            456667777888888888888888888776 6677777777788888888888888888887763 33434444444443


Q ss_pred             HHcCCH-HHHHHHHHHHHH
Q 015590          244 CEKGNV-EEAFGLLERMES  261 (404)
Q Consensus       244 ~~~~~~-~~A~~~~~~m~~  261 (404)
                      -+.... +...++|..|-.
T Consensus       336 ~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            333333 233556666643

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.78  E-value=1  Score=39.28  Aligned_cols=154  Identities=14%  Similarity=0.066  Sum_probs=95.4

Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC---CCCCcHHHHHHHHHHHHHcCCHHH
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ---NCEPNVRTYSTLMHGLCEKGNVEE  251 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~  251 (404)
                      ..|...+|-..++++.+. .|.|...+...=++|.-.|+.+.-...++.+...   ++|.....-....-++...|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            456666666677777665 3677777777778888888888777777776543   222222223344455667788888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC---CCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          252 AFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK---GCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       252 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      |++.-++..+-+.. |.-.-.++...+...|+..++.++..+-...   +-..-..-|....-.+...+.++.|+++|+.
T Consensus       194 AEk~A~ralqiN~~-D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  194 AEKQADRALQINRF-DCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCCCc-chHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            88777776655322 4445556666666778888887776655443   1111223344444445566778888888865


Q ss_pred             HH
Q 015590          329 MI  330 (404)
Q Consensus       329 ~~  330 (404)
                      -+
T Consensus       273 ei  274 (491)
T KOG2610|consen  273 EI  274 (491)
T ss_pred             HH
Confidence            43

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.70  E-value=1.6  Score=34.21  Aligned_cols=123  Identities=12%  Similarity=0.122  Sum_probs=49.9

Q ss_pred             HhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHH-HHHHHH--HHHHhcCc
Q 015590          102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVK-TFNLVL--NLLVSAKL  178 (404)
Q Consensus       102 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~~~ll--~~~~~~~~  178 (404)
                      ++.+..++|..-|..+.+.+....+.......-.... +.|+...|...|++.-.....|-.. -...|=  -.+...|.
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a-~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLA-QKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHh-hcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            4445555555555555544432222211111111122 2555555555555554432112111 000010  11233445


Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHch
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  225 (404)
                      ++++....+-+-..+-+.-...-..|.-+-.+.|++.+|..+|..+.
T Consensus       148 y~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         148 YDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            55554444444433333333333444444445555555555555443

>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=94.70  E-value=2.7  Score=36.62  Aligned_cols=188  Identities=15%  Similarity=0.063  Sum_probs=101.6

Q ss_pred             hcC-cHhHHHHHHHHHHHc--------CCCCC-----HhHHHHHHHHHHhcCChH---HHHHHHHHchhCCCCCcHHHHH
Q 015590          175 SAK-LYGEIQGIYTSAAKL--------GVEID-----ACCLNILLKGLCENGNLE---AAFYVLDEFPKQNCEPNVRTYS  237 (404)
Q Consensus       175 ~~~-~~~~a~~~~~~~~~~--------g~~~~-----~~~~~~li~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~  237 (404)
                      +.+ +++.|..++++..+.        ...++     ..+...++.+|...+..+   +|.++++.+.... +-....+-
T Consensus        47 ~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~  125 (278)
T PF08631_consen   47 SKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFL  125 (278)
T ss_pred             HcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHH
Confidence            344 666666665554332        11222     346677888888887754   5566666665442 22345555


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH---HcCCCHHHHHHHHHHHhhCCCCCChhhHH--HHHH-
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL---RKQGKVEEGMKLLERMKGKGCYPNSASYQ--EVLY-  311 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~---~~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~-  311 (404)
                      .-+..+.+.++.+++.+++.+|...-.. ....+...+..+   .... ...+...+..+....+.|....|.  .++. 
T Consensus       126 L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~  203 (278)
T PF08631_consen  126 LKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDSILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEKLVLTR  203 (278)
T ss_pred             HHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHHHHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            6667777789999999999999876221 334455444444   3333 455666666666554444443111  1111 


Q ss_pred             --HHHhcCC------hhHHHHHHHHHHHC-CCCCCHHHHHHHH-------HHHHcCCChHHHHHHHHHHH
Q 015590          312 --GLLDKKR------FPEAKELVGRMICE-RMSPSFVSYKKLI-------HGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       312 --~~~~~g~------~~~a~~~~~~~~~~-~~~p~~~~~~~li-------~~~~~~g~~~~a~~~~~~m~  365 (404)
                        ...+.++      .+...++++...+. +.+.+..+-.++.       ..+.+.+++++|.+.|+--.
T Consensus       204 ~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  204 VLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence              1122222      34444444433322 3334444433322       23556788999998887543

It is also involved in sporulation [].

>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=94.58  E-value=1.8  Score=34.09  Aligned_cols=99  Identities=17%  Similarity=0.221  Sum_probs=45.3

Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY  300 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  300 (404)
                      +..+.+.+++|+...|..+++.+.+.|++..    +..+...++-+|.......+-.+.  +....+.++--+|..+   
T Consensus        17 irSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR---   87 (167)
T PF07035_consen   17 IRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR---   87 (167)
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH---
Confidence            3334445555555566666666666655443    233334444444444433332222  1223333443334333   


Q ss_pred             CChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          301 PNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       301 p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                       =...+..++..+...|++-+|+++.+..
T Consensus        88 -L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 -LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             -hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence             0113344455555666666666665554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.48  E-value=1.2  Score=33.81  Aligned_cols=54  Identities=28%  Similarity=0.220  Sum_probs=25.2

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          244 CEKGNVEEAFGLLERMESEGID--ADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .+.|++++|.+.|+.+..+-..  -....--.++.+|.+.|++++|...+++..+.
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3445555555555555443111  11223334455555555555555555555444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.47  E-value=2.3  Score=34.95  Aligned_cols=200  Identities=21%  Similarity=0.111  Sum_probs=97.7

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHc-CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH-
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKL-GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH-  241 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~-  241 (404)
                      ..+......+...+.+..+...+...... ........+......+...+++..+...+.........+ ......... 
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  138 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALG  138 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHH
Confidence            34444444555555555555555544431 123334444445555555555555555555554432111 111222222 


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCCh
Q 015590          242 GLCEKGNVEEAFGLLERMESEGI--DADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRF  319 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  319 (404)
                      .+...|+++.|...|.+......  ......+......+...++.+.+...+..............+..+...+...++.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         139 ALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            45566666666666666533211  0122223333333455566666666666666552111244555556666666666


Q ss_pred             hHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          320 PEAKELVGRMICERMSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       320 ~~a~~~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      +.|...+......  .|+ ...+..+...+...|..+++...+....+
T Consensus       219 ~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         219 EEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666653  232 33333333334455556666666666653

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.42  E-value=0.6  Score=40.19  Aligned_cols=106  Identities=13%  Similarity=0.136  Sum_probs=76.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCC-ChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHH
Q 015590           86 DYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRF-SDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVK  164 (404)
Q Consensus        86 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  164 (404)
                      |.+.+..+...++..-....+++.+...+-.++....... +....+ .+...+. .-++++++-++..=...|+-||-.
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            4455556666666666667788888888887765431111 112222 3334444 567889999999999999999999


Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcC
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  193 (404)
                      +++.+|+.+.+.+++.+|.++...|+...
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            99999999999999999999888887654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.28  E-value=3.8  Score=36.69  Aligned_cols=290  Identities=12%  Similarity=0.084  Sum_probs=179.8

Q ss_pred             ChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHH--HhcCCchHHHHHHHHHHhcccCCCChHHHHHHH-HHHHhhcCCHHH
Q 015590           70 DPISVISVLNQYSKRKDYNPNEALYTLIINKL--AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI-KIYGNMAGRISK  146 (404)
Q Consensus        70 ~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~  146 (404)
                      .|..+...|..-.+..|       |..|-..+  +..|+-..|.++-.+..+.  ...+......++ .......|+++.
T Consensus        68 sP~t~~Ryfr~rKRdrg-------yqALStGliAagAGda~lARkmt~~~~~l--lssDqepLIhlLeAQaal~eG~~~~  138 (531)
T COG3898          68 SPYTARRYFRERKRDRG-------YQALSTGLIAAGAGDASLARKMTARASKL--LSSDQEPLIHLLEAQAALLEGDYED  138 (531)
T ss_pred             CcHHHHHHHHHHHhhhH-------HHHHhhhhhhhccCchHHHHHHHHHHHhh--hhccchHHHHHHHHHHHHhcCchHH
Confidence            46677777777755444       33444333  3567888888887765322  111222222222 222223899999


Q ss_pred             HHHHHhhcccCCCCccHH--HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          147 AIETLFDMPSYNCWPSVK--TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       147 A~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      |.+-|+.|...   |...  -...|.-...+.|+.+.|.++-+..-... +--.-.+...+...+..|+|+.|+++.+.-
T Consensus       139 Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~  214 (531)
T COG3898         139 ARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQ  214 (531)
T ss_pred             HHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHH
Confidence            99999999873   4332  23334444567889999998888876653 334567788999999999999999999876


Q ss_pred             hhCC-CCCcHHH--HHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          225 PKQN-CEPNVRT--YSTLMHGLCE---KGNVEEAFGLLERMESEGIDADTVTF-NILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       225 ~~~~-~~~~~~~--~~~li~~~~~---~~~~~~A~~~~~~m~~~~~~p~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .+.. +.+++.-  -..|+.+-..   .-+...|...-.+..+  +.||.+.- ..-..++.+.|+..++-.+++.+-+.
T Consensus       215 ~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~  292 (531)
T COG3898         215 RAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA  292 (531)
T ss_pred             HHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc
Confidence            5432 3444432  2233332211   2245555554444333  35554432 33457789999999999999999988


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHh
Q 015590          298 GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE-RMSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGM  375 (404)
Q Consensus       298 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  375 (404)
                      .  |.+..+...  .+.+.|+  .+..-+++..+. .++| +...-..+..+-...|++..|+.--+...  ...|....
T Consensus       293 e--PHP~ia~lY--~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~--r~~pres~  364 (531)
T COG3898         293 E--PHPDIALLY--VRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA--REAPRESA  364 (531)
T ss_pred             C--CChHHHHHH--HHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh--hhCchhhH
Confidence            4  444444322  2445554  444444443322 2445 45666777888889999988888777766  57788877


Q ss_pred             HHHHHHh
Q 015590          376 WREIVGC  382 (404)
Q Consensus       376 ~~~ll~~  382 (404)
                      |..|-+.
T Consensus       365 ~lLlAdI  371 (531)
T COG3898         365 YLLLADI  371 (531)
T ss_pred             HHHHHHH
Confidence            7766653

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.27  E-value=4  Score=36.84  Aligned_cols=165  Identities=16%  Similarity=0.044  Sum_probs=105.7

Q ss_pred             CCHHHHHHHH-HHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHH
Q 015590           89 PNEALYTLII-NKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN  167 (404)
Q Consensus        89 p~~~~~~~li-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  167 (404)
                      |...+|..+- .++.-.|+.++|.++--.+.+.+.... ...+..-...|+  .++.+.|...|++-+..+  |+...-.
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld~~n~-~al~vrg~~~yy--~~~~~ka~~hf~qal~ld--pdh~~sk  240 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLDATNA-EALYVRGLCLYY--NDNADKAINHFQQALRLD--PDHQKSK  240 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcccchh-HHHHhccccccc--ccchHHHHHHHhhhhccC--hhhhhHH
Confidence            4445555443 355677899999888877765541111 111222222222  789999999999988866  6543322


Q ss_pred             HH-------------HHHHHhcCcHhHHHHHHHHHHHcC---CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC
Q 015590          168 LV-------------LNLLVSAKLYGEIQGIYTSAAKLG---VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP  231 (404)
Q Consensus       168 ~l-------------l~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  231 (404)
                      .+             .+-..+.|.+.+|.+.|.+.+...   ..++...|........+.|+.++|..--+...+.    
T Consensus       241 ~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i----  316 (486)
T KOG0550|consen  241 SASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI----  316 (486)
T ss_pred             hHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc----
Confidence            11             233467888999999999888653   4556667777778888889999988877776643    


Q ss_pred             cHH-H--HHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          232 NVR-T--YSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       232 ~~~-~--~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      |.. .  |-.-..++...++|++|.+-|++..+.
T Consensus       317 D~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  317 DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            322 2  222233455567888888888877665

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.22  E-value=0.33  Score=43.29  Aligned_cols=130  Identities=10%  Similarity=-0.028  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHh----hCCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHH----CC-CCCCH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMK----GKGCY-PNSASYQEVLYGLLDKKRFPEAKELVGRMIC----ER-MSPSF  338 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~----~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~-~~p~~  338 (404)
                      ..|..|-..|.-.|+++.|+...+.-.    +.|-+ .....+..+..++.-.|+++.|.+.+.....    .| -....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            456777777777899999887665422    22311 1235677788888889999999999876542    22 22345


Q ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHC-----CCCCCHHhHHHHHHhhccCCCCcchhhHHHh
Q 015590          339 VSYKKLIHGLCNQKLVEDVDWVLKKMVQQ-----GFVPRMGMWREIVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       339 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  398 (404)
                      .+..+|.+.|.-..++++|+.++++-...     +..-....+.+|-.++..-+..+.+.++.+.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~  340 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAEL  340 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            66777888888888999999988764321     2223345677777777766666666655543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.21  E-value=1.3  Score=39.74  Aligned_cols=91  Identities=13%  Similarity=0.096  Sum_probs=52.9

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHc-----CCCC---------CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHH
Q 015590          171 NLLVSAKLYGEIQGIYTSAAKL-----GVEI---------DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTY  236 (404)
Q Consensus       171 ~~~~~~~~~~~a~~~~~~~~~~-----g~~~---------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  236 (404)
                      +.+.+.|++..|..-|+...+.     +.++         -..++..+.-+|.+.+++..|...-+.....+ ++|+-..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KAL  294 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKAL  294 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHH
Confidence            4566777777777777765432     1111         12345555566666666666666666555554 4555554


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          237 STLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       237 ~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ---..+|...|+++.|...|+++++.
T Consensus       295 yRrG~A~l~~~e~~~A~~df~ka~k~  320 (397)
T KOG0543|consen  295 YRRGQALLALGEYDLARDDFQKALKL  320 (397)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            44555666666666666666666654

>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=94.15  E-value=1.8  Score=32.33  Aligned_cols=138  Identities=10%  Similarity=0.159  Sum_probs=66.7

Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      .|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-+   -.|..          .+|+.......
T Consensus        15 dG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis----------~C~NlKrVi~C   78 (161)
T PF09205_consen   15 DGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDIS----------KCGNLKRVIEC   78 (161)
T ss_dssp             TT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GG----------G-S-THHHHHH
T ss_pred             hchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCch----------hhcchHHHHHH
Confidence            45666666666665542   2444455554444443333333333333322   12221          22333333333


Q ss_pred             HHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCC
Q 015590          291 LERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFV  370 (404)
Q Consensus       291 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  370 (404)
                      +-.+-     .+......-++.+...|+-+.-.++..++.+. -.+++...-.+..+|.+.|+..++.+++.+..+.|++
T Consensus        79 ~~~~n-----~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   79 YAKRN-----KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            32221     13344455566677777777777777777643 3566777777777777777777777777777777654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.13  E-value=3.1  Score=35.04  Aligned_cols=52  Identities=13%  Similarity=-0.015  Sum_probs=24.0

Q ss_pred             cCCHHHHHHHHhhcccCC--CCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc
Q 015590          141 AGRISKAIETLFDMPSYN--CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                      .|++++|.+.|+.+....  -+-...+--.++-++-+.++++.|+...++..+.
T Consensus        47 ~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          47 KGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            455555555555554322  0011223333444445555555555555555443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=94.13  E-value=0.79  Score=39.33  Aligned_cols=60  Identities=17%  Similarity=0.191  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      ++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            44455555555555555555555555443 2244555555555555555555555555444

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.09  E-value=0.99  Score=38.18  Aligned_cols=87  Identities=20%  Similarity=0.195  Sum_probs=38.1

Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCC---HhHHHHHHHHHHhcCChHHHHHHHHHchhCC--CCCcHHHHHHHHHHHHHcCCH
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEID---ACCLNILLKGLCENGNLEAAFYVLDEFPKQN--CEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~  249 (404)
                      +.|++..|.+.|...++.. |-+   ...+--|..++...|++++|..+|..+.+.-  .+.-..+.--+.....+.|+.
T Consensus       153 ksgdy~~A~~~F~~fi~~Y-P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~  231 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKY-PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT  231 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH
Confidence            3444555555555554432 111   1223334455555555555555555444321  011123334444444555555


Q ss_pred             HHHHHHHHHHHHC
Q 015590          250 EEAFGLLERMESE  262 (404)
Q Consensus       250 ~~A~~~~~~m~~~  262 (404)
                      ++|-..|+++.+.
T Consensus       232 d~A~atl~qv~k~  244 (262)
T COG1729         232 DEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555555444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.08  E-value=5  Score=37.26  Aligned_cols=169  Identities=11%  Similarity=0.038  Sum_probs=100.8

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHH
Q 015590           59 TEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYG  138 (404)
Q Consensus        59 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~  138 (404)
                      ..+|.-..+.++++.-++.-.++++.   .||..+.-.++ +--.+....++++++++..+.+........   ...   
T Consensus       172 q~IMq~AWRERnp~aRIkaA~eALei---~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~~lg~s~---~~~---  241 (539)
T PF04184_consen  172 QEIMQKAWRERNPQARIKAAKEALEI---NPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEASLGKSQ---FLQ---  241 (539)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHh---hhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHHhhchhh---hhh---
Confidence            46777777888888888887777653   45554332222 222355678899999887655411100000   000   


Q ss_pred             hhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCC-CCHhHHHHHHHHHHhcCChHHH
Q 015590          139 NMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVE-IDACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       139 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~a  217 (404)
                      . .|.      .++.....+..|-..+=..+..++.+.|+.++|++.+++|.+..-. ....+...|+.++...+.+.++
T Consensus       242 ~-~g~------~~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~  314 (539)
T PF04184_consen  242 H-HGH------FWEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADV  314 (539)
T ss_pred             c-ccc------hhhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHH
Confidence            0 111      1111222222222333345666777899999999999999875322 2455778899999999999999


Q ss_pred             HHHHHHchhCCCCCc-HHHHHHHHHHHH
Q 015590          218 FYVLDEFPKQNCEPN-VRTYSTLMHGLC  244 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~-~~~~~~li~~~~  244 (404)
                      ..++.+-.+...+.+ ...|+..+--+.
T Consensus       315 q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  315 QALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            999998765443332 345666554333

The molecular function of this protein is uncertain.

>PRK11906 transcriptional regulator; Provisional

Probab=94.05  E-value=4.9  Score=37.06  Aligned_cols=161  Identities=9%  Similarity=0.066  Sum_probs=81.2

Q ss_pred             CCH--HHHHHHHhcCC-----ChhHHHHHHHHHhhCCCCCCCH-HHHHHHHHHHHh---------cCCchHHHHHHHHHH
Q 015590           56 LSP--TEVLKIFSNLR-----DPISVISVLNQYSKRKDYNPNE-ALYTLIINKLAQ---------AKRFDAIEDIMQRIK  118 (404)
Q Consensus        56 ~~~--~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~p~~-~~~~~li~~~~~---------~~~~~~a~~~~~~~~  118 (404)
                      ..|  ...+++.....     +.+.|+.+|.++.......|+- ..|..+..++..         ..+..+|.+.-++..
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            456  55666555522     3467888888887444455553 344433332221         122344555555555


Q ss_pred             hcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccH-HHHHHHHHHHHhcCcHhHHHHHHHHHHHcC-CCC
Q 015590          119 VEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSV-KTFNLVLNLLVSAKLYGEIQGIYTSAAKLG-VEI  196 (404)
Q Consensus       119 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g-~~~  196 (404)
                      +.+   +.+......+.......++++.|..+|++....+  ||. .+|....-.+.-.|+.++|.+.+++..+.. ...
T Consensus       332 eld---~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~  406 (458)
T PRK11906        332 DIT---TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRR  406 (458)
T ss_pred             hcC---CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhh
Confidence            443   3333333332222222556777777777766644  543 355555555556677777777777655442 111


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLD  222 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~  222 (404)
                      -..+....++.|+..+ ++.|.+++-
T Consensus       407 ~~~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        407 KAVVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHHHHcCCc-hhhhHHHHh
Confidence            2233334444555443 455555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.04  E-value=0.19  Score=29.48  Aligned_cols=21  Identities=29%  Similarity=0.246  Sum_probs=8.0

Q ss_pred             HHHHHHcCCHHHHHHHHHHHH
Q 015590          240 MHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       240 i~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ...|.+.|++++|.++|++..
T Consensus         8 a~~~~~~G~~~~A~~~~~~~l   28 (44)
T PF13428_consen    8 ARAYRRLGQPDEAERLLRRAL   28 (44)
T ss_pred             HHHHHHcCCHHHHHHHHHHHH
Confidence            333333333333333333333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.88  E-value=0.32  Score=28.49  Aligned_cols=27  Identities=15%  Similarity=0.007  Sum_probs=13.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      +..+...|...|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344455555555555555555555544

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.72  E-value=2.6  Score=32.77  Aligned_cols=16  Identities=19%  Similarity=0.318  Sum_probs=8.6

Q ss_pred             cCCHHHHHHHHhhccc
Q 015590          141 AGRISKAIETLFDMPS  156 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~  156 (404)
                      .|++.+|..+|+++..
T Consensus        57 r~~w~dA~rlLr~l~~   72 (160)
T PF09613_consen   57 RGDWDDALRLLRELEE   72 (160)
T ss_pred             hCCHHHHHHHHHHHhc
Confidence            4555555555555544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.62  E-value=1.5  Score=42.96  Aligned_cols=176  Identities=15%  Similarity=0.147  Sum_probs=99.3

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHH----HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNL----VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILL  205 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~----ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  205 (404)
                      ..+-+...+. ...++-|+.+-+.-..     +..+...    ..+-+.+.|++++|...|-+-+.. ++|.     .+|
T Consensus       337 le~kL~iL~k-K~ly~~Ai~LAk~~~~-----d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi  404 (933)
T KOG2114|consen  337 LETKLDILFK-KNLYKVAINLAKSQHL-----DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVI  404 (933)
T ss_pred             HHHHHHHHHH-hhhHHHHHHHHHhcCC-----CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHH
Confidence            3344555554 5667777766655332     2223223    333445677788777777655432 1222     345


Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVE  285 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  285 (404)
                      .-|....++..--.+++.+.+.|+ .+...-+.|+.+|.+.++.++-.+..+... .|..  ..-....+..+.+.+-.+
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~  480 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLD  480 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHH
Confidence            555666666666677777777773 455555777788888888777666665544 2221  112334555566666666


Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          286 EGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       286 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      +|..+-.+....     ......+   +-..+++++|++++..+
T Consensus       481 ~a~~LA~k~~~h-----e~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  481 EAELLATKFKKH-----EWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHHHHHhccC-----HHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            666665544431     2222222   34457788888877766

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.27  E-value=3.1  Score=32.33  Aligned_cols=51  Identities=14%  Similarity=0.229  Sum_probs=22.0

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          245 EKGNVEEAFGLLERMESEGIDADTVTFNI-LISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~-li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      +.++.+++..++..+.-.  .|....... -...+...|++.+|+++|+++.+.
T Consensus        22 ~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVL--RPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             ccCChHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            344555555555555443  222221111 122234455555555555555444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.22  E-value=7.2  Score=40.13  Aligned_cols=109  Identities=20%  Similarity=0.198  Sum_probs=61.5

Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHHH----HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKT----FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGL  208 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  208 (404)
                      -...|.++.|.+.+|+.++.        |+...    |.+...-+...+.+++|--.|+..-+.         .--+.+|
T Consensus       913 e~~n~I~kh~Ly~~aL~ly~--------~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~  975 (1265)
T KOG1920|consen  913 ECKNYIKKHGLYDEALALYK--------PDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAY  975 (1265)
T ss_pred             HHHHHHHhcccchhhhheec--------cCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHH
Confidence            33344444566666655542        44433    344444445566666666666544321         1345677


Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNVRT--YSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      -.+|+|.+|..+..++..   ..|...  --.|+.-+...+++-+|-++..+...
T Consensus       976 ~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s 1027 (1265)
T KOG1920|consen  976 KECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLS 1027 (1265)
T ss_pred             HHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc
Confidence            777788887777776653   122222  24566777777777777777666554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=93.17  E-value=5.1  Score=34.51  Aligned_cols=122  Identities=18%  Similarity=0.111  Sum_probs=59.5

Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                      .....|++.+|...|+...... +-+...--.++.+|...|+.+.|..++..+...--.........-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            3445566677777666665543 333445555666677777777777777665433211111221122222333333333


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          287 GMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       287 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      ...+-++.-..  +-|...-..+...+...|+.++|.+.+-.+.+
T Consensus       222 ~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         222 IQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33333333322  11444444555556666666666665555543

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.12  E-value=8.9  Score=37.15  Aligned_cols=180  Identities=18%  Similarity=0.089  Sum_probs=106.8

Q ss_pred             chHHHHHHHHHHhcccCCCChHHHHHHHH----H-HHhhcCCHHHHHHHHhhccc-------CCCCccHHHHHHHHHHHH
Q 015590          107 FDAIEDIMQRIKVEKLCRFSDGFFYNVIK----I-YGNMAGRISKAIETLFDMPS-------YNCWPSVKTFNLVLNLLV  174 (404)
Q Consensus       107 ~~~a~~~~~~~~~~~~~~~~~~~~~~~l~----~-~~~~~g~~~~A~~~~~~m~~-------~~~~p~~~~~~~ll~~~~  174 (404)
                      ...+.++++.....+.    ....+.+..    . ... ..+.+.|+..|....+       .|   +.....-+..+|.
T Consensus       228 ~~~a~~~~~~~a~~g~----~~a~~~~g~~y~~G~~g~-~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~  299 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH----SEAQYALGICYLAGTYGV-TQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYL  299 (552)
T ss_pred             hhHHHHHHHHHHhhcc----hHHHHHHHHHHhhccccc-cccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHh
Confidence            3567788887766651    111222211    1 223 6789999999988765       44   2335566666776


Q ss_pred             hcC-----cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh-cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHH--Hc
Q 015590          175 SAK-----LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE-NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC--EK  246 (404)
Q Consensus       175 ~~~-----~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~--~~  246 (404)
                      +..     +.+.|..++...-+.| .|+....-..+..... -.+...|.++|....+.| .++..-+.+++-...  -.
T Consensus       300 ~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G-~~~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  300 QGLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAG-HILAIYRLALCYELGLGVE  377 (552)
T ss_pred             cCCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcC-ChHHHHHHHHHHHhCCCcC
Confidence            643     6677999999888887 4555444333333333 346789999999988887 344433333333222  23


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      .+.+.|..++++..+.|. |...--...+..+.. +.++.+.-.+..+.+.|
T Consensus       378 r~~~~A~~~~k~aA~~g~-~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKGN-PSAAYLLGAFYEYGV-GRYDTALALYLYLAELG  427 (552)
T ss_pred             CCHHHHHHHHHHHHHccC-hhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhh
Confidence            468889999999888873 222222222333333 66666666666665554

>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=92.99  E-value=0.0031  Score=48.74  Aligned_cols=52  Identities=19%  Similarity=0.235  Sum_probs=22.4

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          241 HGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ..+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++
T Consensus        15 ~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   15 SAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            3333444444444444444443333344444445555555444444444443

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.88  E-value=8  Score=35.98  Aligned_cols=59  Identities=17%  Similarity=0.244  Sum_probs=37.9

Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          273 ILISGLRKQGKVEEGMKLLERMKGKGCY-PNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       273 ~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      .+..++-+.|+.++|.+.+++|.+.... -+......|+.++...+.+.++..++.+..+
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            3445555677777777777777654211 1234566777777777777777777777644

The molecular function of this protein is uncertain.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.56  E-value=3.8  Score=31.39  Aligned_cols=52  Identities=10%  Similarity=-0.050  Sum_probs=23.6

Q ss_pred             cCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCC
Q 015590          104 AKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYN  158 (404)
Q Consensus       104 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  158 (404)
                      .++.+++..+++.+....   |.......+-.......|++++|.++|+++.+.+
T Consensus        23 ~~d~~D~e~lLdALrvLr---P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLR---PNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhC---CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            455555666655554332   2222222222222222566666666666655543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.45  E-value=5.7  Score=33.23  Aligned_cols=28  Identities=21%  Similarity=0.399  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHH
Q 015590           91 EALYTLIINKLAQAKRFDAIEDIMQRIK  118 (404)
Q Consensus        91 ~~~~~~li~~~~~~~~~~~a~~~~~~~~  118 (404)
                      ...|.....+|....++++|...+.+..
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~   58 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKAS   58 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHH
Confidence            3456666778888889999888777764

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.32  E-value=4.6  Score=31.83  Aligned_cols=135  Identities=13%  Similarity=0.131  Sum_probs=69.3

Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          183 QGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       183 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .++.+.+.+.+++|+...+..+++.+.+.|++..-..++    ..++-+|.......+-.+..  ....+.++=-+|.++
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL----QYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----hhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            344555556677777777777777777777755544433    33334444433333322222  223333333333332


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          263 GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       263 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                          =...+..++..+...|++-+|.++.+.....    +......++.+..+.++...=..+++-..+
T Consensus        88 ----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   88 ----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                1113445666677777777777777665332    222224455555555555444444444433

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.29  E-value=3.7  Score=30.64  Aligned_cols=50  Identities=16%  Similarity=0.014  Sum_probs=22.1

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAK  191 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  191 (404)
                      .|+.+.|++.|.+....- +-....||.-..++.-.|+.++|++=+++..+
T Consensus        56 ~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   56 AGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             ccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            444444544444443321 12334444444444444444444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.26  E-value=2.2  Score=36.92  Aligned_cols=48  Identities=21%  Similarity=0.269  Sum_probs=26.3

Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      +++++..++..=...|+-||..+++.+|+.+.+.++..+|.++.-.|.
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            444555555555555555555555555555555555555555544443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=92.20  E-value=0.42  Score=26.52  Aligned_cols=23  Identities=22%  Similarity=0.280  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      |+.|...|.+.|++++|+.+|++
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

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.09  E-value=5.8  Score=32.48  Aligned_cols=215  Identities=18%  Similarity=0.056  Sum_probs=148.5

Q ss_pred             cCcHhHHHHHHHHHHHcCCC-CCHhHHHHHHHHHHhcCChHHHHHHHHHchhC-CCCCcHHHHHHHHHHHHHcCCHHHHH
Q 015590          176 AKLYGEIQGIYTSAAKLGVE-IDACCLNILLKGLCENGNLEAAFYVLDEFPKQ-NCEPNVRTYSTLMHGLCEKGNVEEAF  253 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~  253 (404)
                      .+....+...+......... .....+......+...+++..+...+...... ........+......+...++...+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45556666666666655322 13677888889999999999999988887652 22556677888888888899999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH-HHHcCCCHHHHHHHHHHHhhCCC--CCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          254 GLLERMESEGIDADTVTFNILIS-GLRKQGKVEEGMKLLERMKGKGC--YPNSASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       254 ~~~~~m~~~~~~p~~~~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      ..+.........+ ......... .+...|+++.+...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            9999988764443 222333333 78899999999999999865321  1233444444445677899999999999998


Q ss_pred             HCCCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHhHHHHHHhhccCCCCcchhh
Q 015590          331 CERMSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR-MGMWREIVGCVTFGKDNRNRVY  394 (404)
Q Consensus       331 ~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~~~~  394 (404)
                      ... .. ....+..+...+...++++++...+.....  ..|+ ...+..+...+...+..+.+..
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  257 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALE--LDPDNAEALYNLALLLLELGRYEEALE  257 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHh--hCcccHHHHhhHHHHHHHcCCHHHHHH
Confidence            752 33 467788888899999999999999999884  4444 3333333333334443444443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.04  E-value=12  Score=36.19  Aligned_cols=276  Identities=13%  Similarity=0.050  Sum_probs=148.1

Q ss_pred             hhHHHHHHHHHhhCCCCCCCHHHHHHHHH----H-HHhcCCchHHHHHHHHHHh-------cccCCCChHHHHHHHHHHH
Q 015590           71 PISVISVLNQYSKRKDYNPNEALYTLIIN----K-LAQAKRFDAIEDIMQRIKV-------EKLCRFSDGFFYNVIKIYG  138 (404)
Q Consensus        71 ~~~a~~~~~~~~~~~~~~p~~~~~~~li~----~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~~l~~~~  138 (404)
                      ...|.+.++...+..    +......+..    . +....|.+.|..+++.+..       .+    .....+.+-..|.
T Consensus       228 ~~~a~~~~~~~a~~g----~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~----~~~a~~~lg~~Y~  299 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG----HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG----LPPAQYGLGRLYL  299 (552)
T ss_pred             hhHHHHHHHHHHhhc----chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc----CCccccHHHHHHh
Confidence            467888888875433    2222222222    2 3456789999999998865       22    1112223333333


Q ss_pred             hh---cC-CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh-cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHH--hc
Q 015590          139 NM---AG-RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS-AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLC--EN  211 (404)
Q Consensus       139 ~~---~g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~--~~  211 (404)
                      ..   .. +.+.|+.++.+.-+.|. |+....-..+.-... ..+...|.++|...-+.|. ++..-+-.++-...  -.
T Consensus       300 ~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  300 QGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVE  377 (552)
T ss_pred             cCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcC
Confidence            21   22 77889999999888773 554443333322222 3567899999999999883 33333322222222  23


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----Hc----CCC
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL----RK----QGK  283 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~----~~----~g~  283 (404)
                      .+.+.|..+++...+.| .|...--...+..+.. ++++.+...+..+.+.|.. +..+-...+..-    ..    ..+
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~-~~q~~a~~l~~~~~~~~~~~~~~~~  454 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYE-VAQSNAAYLLDQSEEDLFSRGVIST  454 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhh-HHhhHHHHHHHhccccccccccccc
Confidence            46889999999999887 3333333333444444 7888888877777766544 222222111110    11    124


Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHH----HHcCCChH
Q 015590          284 VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK----KRFPEAKELVGRMICERMSPSFVSYKKLIHG----LCNQKLVE  355 (404)
Q Consensus       284 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~----~~~~g~~~  355 (404)
                      .+.+...+......|   +......+-+.|..-    .+++.|...+......+   ...+|+ +-..    ..... +.
T Consensus       455 ~~~~~~~~~~a~~~g---~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~n-lg~~~e~g~g~~~-~~  526 (552)
T KOG1550|consen  455 LERAFSLYSRAAAQG---NADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFN-LGYMHEHGEGIKV-LH  526 (552)
T ss_pred             hhHHHHHHHHHHhcc---CHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhh-hhhHHhcCcCcch-hH
Confidence            555666666665554   333444444433322    24556666666555443   222222 2111    11223 56


Q ss_pred             HHHHHHHHHHHC
Q 015590          356 DVDWVLKKMVQQ  367 (404)
Q Consensus       356 ~a~~~~~~m~~~  367 (404)
                      .|.++++...+.
T Consensus       527 ~a~~~~~~~~~~  538 (552)
T KOG1550|consen  527 LAKRYYDQASEE  538 (552)
T ss_pred             HHHHHHHHHHhc
Confidence            666666666544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.02  E-value=4  Score=30.46  Aligned_cols=52  Identities=23%  Similarity=0.308  Sum_probs=25.4

Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      .+..|+++.|++.|.+....- +.....||.-..++.-.|+.++|++=+++..
T Consensus        53 laE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~Al  104 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKAL  104 (175)
T ss_pred             HHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHH
Confidence            344455555555555444332 3344455555555555555555555544443

>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=91.90  E-value=1.6  Score=34.93  Aligned_cols=97  Identities=11%  Similarity=0.051  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHC---CCCCCHHHHHH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN--SASYQEVLYGLLDKKRFPEAKELVGRMICE---RMSPSFVSYKK  343 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~---~~~p~~~~~~~  343 (404)
                      ..+..+...|++.|+.++|.+.|.++.+....+.  ...+-.+|....-.+++..+...+.+....   |-.++...--.
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            4566777888888888888888888877643333  345667777777788888888887776543   11112111111


Q ss_pred             HHH--HHHcCCChHHHHHHHHHHH
Q 015590          344 LIH--GLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       344 li~--~~~~~g~~~~a~~~~~~m~  365 (404)
                      ...  .+...|++.+|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            112  2345778888888876654

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.

>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=91.63  E-value=4.4  Score=32.46  Aligned_cols=62  Identities=18%  Similarity=0.216  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN--VRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ..+..+.+.|.+.|+.+.|.+.|.++.+....+.  ...+-.+|....-.+++..+.....+..
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3455666666666666666666666655432222  2334555666666666666666655544

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.49  E-value=0.52  Score=26.15  Aligned_cols=23  Identities=13%  Similarity=0.119  Sum_probs=11.7

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTS  188 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~  188 (404)
                      |..|...|.+.|++++|+++|++
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            44455555555555555555555

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.46  E-value=6.7  Score=34.84  Aligned_cols=227  Identities=9%  Similarity=0.041  Sum_probs=125.0

Q ss_pred             cCCChhHHHHHHHHHhhCCC-CCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh----HHHHHHHHHHHhhc
Q 015590           67 NLRDPISVISVLNQYSKRKD-YNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD----GFFYNVIKIYGNMA  141 (404)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  141 (404)
                      ..++.++|+..+.+.+.+.. ...--.+|..+..+.++.|.++++...--.-...-....+.    ..+.++-..+-+ -
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~-l   96 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK-L   96 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H
Confidence            44566777777666654321 11123456677777788887776654432211100000001    111222222221 2


Q ss_pred             CCHHHHHHHHhhccc-CCCCcc---HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-----CCCHhHHHHHHHHHHhcC
Q 015590          142 GRISKAIETLFDMPS-YNCWPS---VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-----EIDACCLNILLKGLCENG  212 (404)
Q Consensus       142 g~~~~A~~~~~~m~~-~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~~~~~~~~~li~~~~~~g  212 (404)
                      -++.+++.+-+.-.. .|..|.   -....++..++...+.++++++.|+...+..-     -....+|..|-..|....
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            233333333332211 121221   12344566777888899999999988765421     123468889999999999


Q ss_pred             ChHHHHHHHHHchh----CCCCCcHH-HHH-----HHHHHHHHcCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHH
Q 015590          213 NLEAAFYVLDEFPK----QNCEPNVR-TYS-----TLMHGLCEKGNVEEAFGLLERMES----EGIDA-DTVTFNILISG  277 (404)
Q Consensus       213 ~~~~a~~~~~~~~~----~~~~~~~~-~~~-----~li~~~~~~~~~~~A~~~~~~m~~----~~~~p-~~~~~~~li~~  277 (404)
                      |+++|.-+.....+    .++ .|.. -|.     .|.-++...|...+|.+.-++..+    .|-.| -......+.+.
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l-~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGL-KDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCc-CchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            99988766554432    221 1221 222     244467778888888887776543    33222 12344567788


Q ss_pred             HHcCCCHHHHHHHHHHHh
Q 015590          278 LRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       278 ~~~~g~~~~a~~~~~~m~  295 (404)
                      |-..|+.+.|+.-|+...
T Consensus       256 yR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHhcccHhHHHHHHHHHH
Confidence            889999999988887654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.22  E-value=12  Score=34.42  Aligned_cols=73  Identities=11%  Similarity=0.113  Sum_probs=42.0

Q ss_pred             CCCCChh-hHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC----CHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 015590          298 GCYPNSA-SYQEVLYGLLDKKRFPEAKELVGRMICERMSP----SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR  372 (404)
Q Consensus       298 ~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  372 (404)
                      -+.|+.. +...|+..+..  +.+++..+-+.+....+.+    =..+|..++....+.++..+|.+.+.-+.  -+.|+
T Consensus       255 yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~--~ldp~  330 (549)
T PF07079_consen  255 YVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLK--ILDPR  330 (549)
T ss_pred             ccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH--hcCCc
Confidence            3445432 33444444444  4555555555444332111    23567888888888999999988888776  34554


Q ss_pred             HH
Q 015590          373 MG  374 (404)
Q Consensus       373 ~~  374 (404)
                      ..
T Consensus       331 ~s  332 (549)
T PF07079_consen  331 IS  332 (549)
T ss_pred             ch
Confidence            43

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.08  E-value=18  Score=36.06  Aligned_cols=180  Identities=12%  Similarity=0.155  Sum_probs=120.5

Q ss_pred             HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHH---HHhhcCCHHHHHHHHhhcccCCCCccHHHHHH
Q 015590           92 ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKI---YGNMAGRISKAIETLFDMPSYNCWPSVKTFNL  168 (404)
Q Consensus        92 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  168 (404)
                      .+...-+..+.+..-++-|..+-+.-.      .+......++..   ++-+.|++++|...|-+-... +.|     ..
T Consensus       335 k~le~kL~iL~kK~ly~~Ai~LAk~~~------~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~  402 (933)
T KOG2114|consen  335 KDLETKLDILFKKNLYKVAINLAKSQH------LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SE  402 (933)
T ss_pred             ccHHHHHHHHHHhhhHHHHHHHHHhcC------CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HH
Confidence            345567777888888888888766531      233334444333   333489999999998876542 223     33


Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      ++.-|........-..+++.+.+.|+ .+...-..|+++|.+.++.++-.+..+.-. .|...  .-....+..+.+.+-
T Consensus       403 Vi~kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~--fd~e~al~Ilr~sny  478 (933)
T KOG2114|consen  403 VIKKFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWF--FDVETALEILRKSNY  478 (933)
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Cccee--eeHHHHHHHHHHhCh
Confidence            56666777788888889999999985 466677889999999999999888877665 33221  113445667777777


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          249 VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      .++|..+-.+...     .......+   +-..+++++|++.+..+.
T Consensus       479 l~~a~~LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  479 LDEAELLATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHHHHHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            7877766555433     23333333   345688999998887664

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.22  E-value=3.1  Score=29.05  Aligned_cols=46  Identities=15%  Similarity=0.100  Sum_probs=27.1

Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          285 EEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       285 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      -++.+-++.+......|++....+-+++|.+.+++..|.++++..+
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3444445555555556666666666666666666666666666555

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.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=89.95  E-value=10  Score=33.81  Aligned_cols=127  Identities=10%  Similarity=-0.049  Sum_probs=63.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCChhhHH-
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESE-----GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYPNSASYQ-  307 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~-----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~-  307 (404)
                      +|..+....+.++++++.|+...+-     +.......+..|-..|.+..++++|.-+..+..+.    ++.--...|. 
T Consensus       127 ~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~  206 (518)
T KOG1941|consen  127 SMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRA  206 (518)
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHH
Confidence            3455555556667777776665432     11112345666666666667777666555544322    2111111122 


Q ss_pred             ----HHHHHHHhcCChhHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          308 ----EVLYGLLDKKRFPEAKELVGRMIC----ERMSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       308 ----~li~~~~~~g~~~~a~~~~~~~~~----~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                          .|.-++...|.+..|.+.-++..+    .|-.+ -......+.+.|...|+.|.|..-|+..
T Consensus       207 ~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  207 MSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence                223334455666555555555432    23222 1233445556666677776666555543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.42  E-value=2.5  Score=29.85  Aligned_cols=46  Identities=15%  Similarity=0.099  Sum_probs=23.6

Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          286 EGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       286 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      +..+-+..+....+.|++....+.+.+|.+.+++..|.++++..+.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~   73 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKD   73 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444444455556666666666666666666666666665554

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 ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.34  E-value=0.55  Score=25.68  Aligned_cols=21  Identities=29%  Similarity=0.275  Sum_probs=8.4

Q ss_pred             CHhHHHHHHHHHHhcCChHHH
Q 015590          197 DACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a  217 (404)
                      +...|+.+...|...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            333444444444444444333

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.95  E-value=0.6  Score=25.56  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=16.4

Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHH
Q 015590          230 EPNVRTYSTLMHGLCEKGNVEEAF  253 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~~~A~  253 (404)
                      |-+..+|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            556667777777777777777664

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=88.87  E-value=15  Score=31.81  Aligned_cols=136  Identities=10%  Similarity=0.091  Sum_probs=85.6

Q ss_pred             cCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHHhcCChhH
Q 015590          246 KGNVEEAFGLLERMES-EGIDADTVTFNILISGLRKQG--KVEEGMKLLERMKGK-GCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      +....+|+++|+.... ..+--|..+...+++......  ....-.++.+-+... +-.++..+...++..+++.+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            4456677777774322 233446666666776665522  223333344444433 456778888888888888899988


Q ss_pred             HHHHHHHHHHC-CCCCCHHHHHHHHHHHHcCCChHHHHHHHHH-----HHHCCCCCCHHhHHHHHH
Q 015590          322 AKELVGRMICE-RMSPSFVSYKKLIHGLCNQKLVEDVDWVLKK-----MVQQGFVPRMGMWREIVG  381 (404)
Q Consensus       322 a~~~~~~~~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~-----m~~~~~~p~~~~~~~ll~  381 (404)
                      -.++|...... +..-|...|..+|+.....|+..-..++..+     +.+.|+..+...-..|-+
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~  286 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSE  286 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHH
Confidence            88888887655 5566788888888888888887666666553     223345555444444433

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.82  E-value=28  Score=35.01  Aligned_cols=223  Identities=11%  Similarity=-0.017  Sum_probs=121.1

Q ss_pred             cCCHHHHHHHHhhcccC----CCCccH---HHHHHHHH-HHHhcCcHhHHHHHHHHHHHc----CCCCCHhHHHHHHHHH
Q 015590          141 AGRISKAIETLFDMPSY----NCWPSV---KTFNLVLN-LLVSAKLYGEIQGIYTSAAKL----GVEIDACCLNILLKGL  208 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~----~~~p~~---~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~----g~~~~~~~~~~li~~~  208 (404)
                      ..++++|..+..++...    +..+..   ..|+.+-. .....|+++++.++.+.....    ...+....+..+..+.
T Consensus       428 ~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~  507 (894)
T COG2909         428 QHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAA  507 (894)
T ss_pred             ccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHH
Confidence            68888988888765432    212222   23444432 234568889998888877654    2234556667777788


Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcHH---HHHHHH--HHHHHcCC--HHHHHHHHHHHHHCC--CC----CCHHHHHHHH
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNVR---TYSTLM--HGLCEKGN--VEEAFGLLERMESEG--ID----ADTVTFNILI  275 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~li--~~~~~~~~--~~~A~~~~~~m~~~~--~~----p~~~~~~~li  275 (404)
                      .-.|++++|..+..+..+..-.-++.   .|..+.  ..+...|+  ..+.+..|.......  -+    +-..++..++
T Consensus       508 ~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll  587 (894)
T COG2909         508 HIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLL  587 (894)
T ss_pred             HHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHH
Confidence            88899999998887766532122333   333332  23455663  333333444333221  11    1223445555


Q ss_pred             HHHHcC-CCHHHHHHHHHHHhhCCCCCChhhHH--HHHHHHHhcCChhHHHHHHHHHHHCCCC----CCHHHHHHHHH--
Q 015590          276 SGLRKQ-GKVEEGMKLLERMKGKGCYPNSASYQ--EVLYGLLDKKRFPEAKELVGRMICERMS----PSFVSYKKLIH--  346 (404)
Q Consensus       276 ~~~~~~-g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~~~~~~~~----p~~~~~~~li~--  346 (404)
                      .++.+. +...++..-+.--......|-.....  .|+......|+.++|...++++......    ++..+-...+.  
T Consensus       588 ~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~~  667 (894)
T COG2909         588 RAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKLI  667 (894)
T ss_pred             HHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhHH
Confidence            555551 12222222222222222222222222  6777788899999999999988765322    23333233332  


Q ss_pred             HHHcCCChHHHHHHHHH
Q 015590          347 GLCNQKLVEDVDWVLKK  363 (404)
Q Consensus       347 ~~~~~g~~~~a~~~~~~  363 (404)
                      .....|+.+++.....+
T Consensus       668 lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         668 LWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HhcccCCHHHHHHHHHh
Confidence            33457888877776665

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.58  E-value=13  Score=30.71  Aligned_cols=67  Identities=16%  Similarity=0.028  Sum_probs=35.9

Q ss_pred             CChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc
Q 015590          125 FSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       125 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                      |.-...+|.+..|....|+++.|.+.|+...+.+..-+-...|.-| ++--.|++..|.+=+...-+.
T Consensus        96 P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~~fYQ~  162 (297)
T COG4785          96 PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLLAFYQD  162 (297)
T ss_pred             CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHHHHHhc
Confidence            4445566666666666777777777777777654111111112112 222346666666655554443

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.26  E-value=5.6  Score=32.27  Aligned_cols=72  Identities=15%  Similarity=0.039  Sum_probs=32.8

Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHcCCCHHHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE---GIDADTVTFNILISGLRKQGKVEEG  287 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a  287 (404)
                      +.|.+.|-.+...+.--++....++...| ...+.+++..++.+..+.   +-.+|+..+.+|...+.+.|+.+.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            44555555555544322333333333222 244555555555544332   2234455555555555555555544

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.09  E-value=4.1  Score=33.39  Aligned_cols=77  Identities=13%  Similarity=0.071  Sum_probs=56.3

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE--RMSPSFVSYKKLIHG  347 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~p~~~~~~~li~~  347 (404)
                      |.+.-++.+.+.+...+++...++-.+.+ +.|..+-..+++.++-.|++++|..-++-.-..  ...+-..+|..+|++
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556677888899999999998888774 335667778899999999999998877766543  123445667666654

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=88.01  E-value=52  Score=37.18  Aligned_cols=293  Identities=11%  Similarity=0.052  Sum_probs=154.3

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCC-CHHH-HHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNP-NEAL-YTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIY  137 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~  137 (404)
                      ++-.+=.+.+.+.+|+..++... ....+. -... |..+...|+.-+++|...-+...-.       -+..+..-+...
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~-~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~-------a~~sl~~qil~~ 1459 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHR-STEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRF-------ADPSLYQQILEH 1459 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhc-cccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhh-------cCccHHHHHHHH
Confidence            33445567788999999999841 111111 1233 3444449999999999888877411       122345555555


Q ss_pred             HhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHH-HHHHHHHHhcCChH
Q 015590          138 GNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL-NILLKGLCENGNLE  215 (404)
Q Consensus       138 ~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~~~~~g~~~  215 (404)
                      .. .|+++.|...|+.+.+.+  |+ ..+++-++......+.++.+.-..+...... .+....+ +.-+.+--+.++++
T Consensus      1460 e~-~g~~~da~~Cye~~~q~~--p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD 1535 (2382)
T KOG0890|consen 1460 EA-SGNWADAAACYERLIQKD--PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWD 1535 (2382)
T ss_pred             Hh-hccHHHHHHHHHHhhcCC--CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchh
Confidence            55 899999999999999866  55 6678877777777777777766555444332 2222222 23344445666666


Q ss_pred             HHHHHHHH-------------chhCCCCCcHHHH-HHH-------H---HHHHHcCCHHHHHHHHHHHH-----------
Q 015590          216 AAFYVLDE-------------FPKQNCEPNVRTY-STL-------M---HGLCEKGNVEEAFGLLERME-----------  260 (404)
Q Consensus       216 ~a~~~~~~-------------~~~~~~~~~~~~~-~~l-------i---~~~~~~~~~~~A~~~~~~m~-----------  260 (404)
                      ..+.....             ..-..-..|.... +.+       +   .++...|.+..+.++.-++.           
T Consensus      1536 ~~e~~l~~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~ 1615 (2382)
T KOG0890|consen 1536 LLESYLSDRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLLELENSIEE 1615 (2382)
T ss_pred             hhhhhhhcccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66555330             0000001121111 110       0   11111111112222111110           


Q ss_pred             HCCCCCCHH------HHHHHHHHHHcCCCHHHHHHHHHH-HhhCCCCC-----ChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          261 SEGIDADTV------TFNILISGLRKQGKVEEGMKLLER-MKGKGCYP-----NSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       261 ~~~~~p~~~------~~~~li~~~~~~g~~~~a~~~~~~-m~~~~~~p-----~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      ..+..++..      -|..-+..-....+..+-.--+++ +......|     -..+|-...+....+|+++.|...+-.
T Consensus      1616 l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~ 1695 (2382)
T KOG0890|consen 1616 LKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLN 1695 (2382)
T ss_pred             hhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHh
Confidence            011122111      121111111111111111111111 11111111     246788888888889999999998888


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          329 MICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       329 ~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ..+.+ .|  ..+--...-....|+...|..++++-.+.
T Consensus      1696 A~e~r-~~--~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~ 1731 (2382)
T KOG0890|consen 1696 AKESR-LP--EIVLERAKLLWQTGDELNALSVLQEILSK 1731 (2382)
T ss_pred             hhhcc-cc--hHHHHHHHHHHhhccHHHHHHHHHHHHHh
Confidence            87764 33  34555567788999999999999998864

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=88.01  E-value=22  Score=32.83  Aligned_cols=124  Identities=19%  Similarity=0.144  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHc---CCCHHHHHHHHHHHhhCCCCCCh----hhHHHHHHH--HHh
Q 015590          249 VEEAFGLLERMESEGIDADTVTFNILI----SGLRK---QGKVEEGMKLLERMKGKGCYPNS----ASYQEVLYG--LLD  315 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~~~~li----~~~~~---~g~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~--~~~  315 (404)
                      -++|+++++...+-.. -|...-|.+.    ..|..   ...+.+-..+-+-+.+.|+.|-.    ..-|.|.++  +..
T Consensus       396 dekalnLLk~il~ft~-yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLys  474 (549)
T PF07079_consen  396 DEKALNLLKLILQFTN-YDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYS  474 (549)
T ss_pred             cHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHh
Confidence            5666777666654311 1322222221    22221   22344445555555566776643    334445444  456


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHH
Q 015590          316 KKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIV  380 (404)
Q Consensus       316 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  380 (404)
                      .|++.++.-.-..+.+  +.|++.+|.-+.-+.....++++|..++..     ++|+..++++=+
T Consensus       475 qgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~~~dskv  532 (549)
T PF07079_consen  475 QGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNERMRDSKV  532 (549)
T ss_pred             cccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchhhHHHHH
Confidence            7899888877777665  689999999888888889999999999986     456666655433

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=87.80  E-value=8.4  Score=32.96  Aligned_cols=87  Identities=13%  Similarity=0.113  Sum_probs=46.8

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH----
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE----  245 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----  245 (404)
                      |.+++..++|.++....-+.-+..-+....+....|-.|+|.|++..+.++-..-...--.-+...|.+++..|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            5666666666666665544433222233444555566666777766666655544332112333446666555544    


Q ss_pred             -cCCHHHHHHHH
Q 015590          246 -KGNVEEAFGLL  256 (404)
Q Consensus       246 -~~~~~~A~~~~  256 (404)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             46666666665

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>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=87.65  E-value=6.3  Score=31.97  Aligned_cols=72  Identities=15%  Similarity=0.043  Sum_probs=31.6

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC---CCCCChhhHHHHHHHHHhcCChhHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK---GCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      ++|.+.|-.+...+.--++.....|...|. ..+.+++.+++.+..+.   +-.+|+..+..|++.+.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344444545544443323333333333332 34445555555444432   2234455555555555555555444

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.92  E-value=2  Score=24.30  Aligned_cols=25  Identities=32%  Similarity=0.457  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      +++.+...|...|++++|..++++.
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            4455555555555555555555544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.55  E-value=9  Score=26.87  Aligned_cols=62  Identities=11%  Similarity=0.017  Sum_probs=39.4

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILL  205 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  205 (404)
                      +.=++.+-++.+...++.|++....+.+++|.+.+++..|.++++-.+... ..+...|..++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~l   83 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYIL   83 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHH
Confidence            444556666666666677777777777777777777777777777666321 11333454444

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.49  E-value=1.8  Score=23.32  Aligned_cols=22  Identities=18%  Similarity=0.166  Sum_probs=8.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHH
Q 015590          308 EVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       308 ~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      .+...+...|++++|+..|++.
T Consensus         6 ~~g~~~~~~~~~~~A~~~~~~a   27 (34)
T PF00515_consen    6 NLGNAYFQLGDYEEALEYYQRA   27 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHHH
Confidence            3333333444444444444333

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.47  E-value=1.4  Score=23.81  Aligned_cols=28  Identities=11%  Similarity=0.038  Sum_probs=24.2

Q ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          339 VSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       339 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .+|..+..+|...|++++|...|++.++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            4678889999999999999999999884

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 ....

>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=86.16  E-value=0.29  Score=37.61  Aligned_cols=84  Identities=15%  Similarity=0.083  Sum_probs=45.8

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....       .-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~-------yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN-------YDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS-------S-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc-------cCHHHHHHHHHhcch
Confidence            3445555666666666666666655455566667777777776666666665552221       122334455555555


Q ss_pred             HHHHHHHHHHH
Q 015590          249 VEEAFGLLERM  259 (404)
Q Consensus       249 ~~~A~~~~~~m  259 (404)
                      +++|.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            55555555443

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.

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=86.07  E-value=37  Score=33.48  Aligned_cols=188  Identities=16%  Similarity=0.175  Sum_probs=108.1

Q ss_pred             hHHHHHHHHHhhCCCCCCCHH--HHHHHHHHHH-hcCCchHHHHHHHHHHhcccC-CCChH--HHHHHHHHHHhhcCCHH
Q 015590           72 ISVISVLNQYSKRKDYNPNEA--LYTLIINKLA-QAKRFDAIEDIMQRIKVEKLC-RFSDG--FFYNVIKIYGNMAGRIS  145 (404)
Q Consensus        72 ~~a~~~~~~~~~~~~~~p~~~--~~~~li~~~~-~~~~~~~a~~~~~~~~~~~~~-~~~~~--~~~~~l~~~~~~~g~~~  145 (404)
                      ..|+..++...+....+|..+  ++-.+...+. ...+++.|+..+++....... ...+.  ....++..++.+.+...
T Consensus        38 ~~ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~~~~~~~d~k~~~~~ll~~i~~~~~~~~  117 (608)
T PF10345_consen   38 ATAIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILLCERHRLTDLKFRCQFLLARIYFKTNPKA  117 (608)
T ss_pred             HHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHHhcCHHH
Confidence            347778888875555555443  4555556555 788999999999976433211 11111  12234455555344444


Q ss_pred             HHHHHHhhcccC----CCCccHHHHHHH-HHHHHhcCcHhHHHHHHHHHHHcC---CCCCHhHHHHHHHHHHh--cCChH
Q 015590          146 KAIETLFDMPSY----NCWPSVKTFNLV-LNLLVSAKLYGEIQGIYTSAAKLG---VEIDACCLNILLKGLCE--NGNLE  215 (404)
Q Consensus       146 ~A~~~~~~m~~~----~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~g---~~~~~~~~~~li~~~~~--~g~~~  215 (404)
                       |....++..+.    +..+-...|..+ +..+...+++..|.+.++.+....   ..|-..++..++.+...  .+..+
T Consensus       118 -a~~~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~  196 (608)
T PF10345_consen  118 -ALKNLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPD  196 (608)
T ss_pred             -HHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCch
Confidence             88888876542    111222334443 333333479999999998876542   24555566666665543  35556


Q ss_pred             HHHHHHHHchhCC---------CCCcHHHHHHHHHHHH--HcCCHHHHHHHHHHHH
Q 015590          216 AAFYVLDEFPKQN---------CEPNVRTYSTLMHGLC--EKGNVEEAFGLLERME  260 (404)
Q Consensus       216 ~a~~~~~~~~~~~---------~~~~~~~~~~li~~~~--~~~~~~~A~~~~~~m~  260 (404)
                      ++.+..+.+....         ..|...+|..+++.++  ..|+++.+...++++.
T Consensus       197 d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq  252 (608)
T PF10345_consen  197 DVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQ  252 (608)
T ss_pred             hHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666553211         2456677888877654  5677667666655553

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.07  E-value=22  Score=30.79  Aligned_cols=118  Identities=10%  Similarity=0.133  Sum_probs=79.0

Q ss_pred             cCCHHHHHHHHhhccc-CCCCccHHHHHHHHHHHHhcC--cHhHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhcCChHH
Q 015590          141 AGRISKAIETLFDMPS-YNCWPSVKTFNLVLNLLVSAK--LYGEIQGIYTSAAK-LGVEIDACCLNILLKGLCENGNLEA  216 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~-~g~~~~~~~~~~li~~~~~~g~~~~  216 (404)
                      +..+.+|+++|+.... ..+--|..+...+++......  ....-.++.+.+.. .|-.++..+...++..+++.+++.+
T Consensus       141 N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~k  220 (292)
T PF13929_consen  141 NKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNK  220 (292)
T ss_pred             hHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHH
Confidence            4557788888884332 234456667777777666522  22222333333332 2346778888888999999999999


Q ss_pred             HHHHHHHchhC-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          217 AFYVLDEFPKQ-NCEPNVRTYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       217 a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      -.++++..... +...|...|..+|....+.|+..-...+.++
T Consensus       221 l~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  221 LFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            88888876654 5567888899999999999888766665543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=85.61  E-value=1.6  Score=23.41  Aligned_cols=25  Identities=12%  Similarity=-0.008  Sum_probs=12.1

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          341 YKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      |..+...+...|++++|.+.|++..
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            3344445555555555555555544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.38  E-value=15  Score=28.26  Aligned_cols=19  Identities=16%  Similarity=0.398  Sum_probs=10.0

Q ss_pred             HcCCCHHHHHHHHHHHhhC
Q 015590          279 RKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|++++|.++|+++.+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3445555555555555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.37  E-value=2.3  Score=24.04  Aligned_cols=25  Identities=40%  Similarity=0.619  Sum_probs=11.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      +++.+...|...|++++|..++++.
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            3444444444445555554444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=83.62  E-value=40  Score=31.78  Aligned_cols=178  Identities=14%  Similarity=0.109  Sum_probs=114.9

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHH
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM  240 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  240 (404)
                      .|.....+++..+.....+.-++.+..+|...|  .+...+-.++.+|... ..++-..+|+++.+..+ .|++.-..+.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            455566777888888888888888888888775  4667788888888887 55677778887777642 2333344444


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCC-----CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-CCCCChhhHHHHHHHHH
Q 015590          241 HGLCEKGNVEEAFGLLERMESEGID-----ADTVTFNILISGLRKQGKVEEGMKLLERMKGK-GCYPNSASYQEVLYGLL  314 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~~~~~-----p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~  314 (404)
                      .-|-+ ++.+.+...|.+...+-++     .-...|.-+...-  ..+.+....+..++... |...-...+.-+-.-|.
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            44444 7888888888877654221     0112455554321  35667777777777665 54445566666667777


Q ss_pred             hcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          315 DKKRFPEAKELVGRMICERMSPSFVSYKKLIH  346 (404)
Q Consensus       315 ~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~  346 (404)
                      ...++++|++++..+.+.+ ..|...-..++.
T Consensus       217 ~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~  247 (711)
T COG1747         217 ENENWTEAIRILKHILEHD-EKDVWARKEIIE  247 (711)
T ss_pred             cccCHHHHHHHHHHHhhhc-chhhhHHHHHHH
Confidence            7888888888888877663 334444344443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=83.62  E-value=29  Score=30.11  Aligned_cols=70  Identities=16%  Similarity=0.019  Sum_probs=44.2

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH-----CCCCCCHHhH
Q 015590          306 YQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-----QGFVPRMGMW  376 (404)
Q Consensus       306 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~  376 (404)
                      ++.....|..+|.+.+|.++.+....-+ +.+...+-.+++.+...|+--.+.+-++.+.+     .|+..|...+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsie  356 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIE  356 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHH
Confidence            3445566777777777777777776542 44666677777777777775555555544432     2666665544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.24  E-value=14  Score=26.26  Aligned_cols=63  Identities=11%  Similarity=0.008  Sum_probs=38.8

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLK  206 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  206 (404)
                      +.=+..+-++.+...++.|++....+.+++|.+.+++..|.++++-++..- .+....|..++.
T Consensus        25 D~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   25 DGWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             -HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            334556666667777777888888888888888888888888888776542 222225655543

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=83.14  E-value=25  Score=29.07  Aligned_cols=163  Identities=16%  Similarity=0.124  Sum_probs=91.7

Q ss_pred             CCCC-HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH-HHHHHHhhcCCHHHHHHHHhhcccCC-CCccH
Q 015590           87 YNPN-EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN-VIKIYGNMAGRISKAIETLFDMPSYN-CWPSV  163 (404)
Q Consensus        87 ~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~  163 (404)
                      +.|+ +.+||-+.--+...|+++.|.+.|+...+.+  +..+-...| .+..|+  .|+++-|.+-|...-+.+ -.|=.
T Consensus        94 i~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELD--p~y~Ya~lNRgi~~YY--~gR~~LAq~d~~~fYQ~D~~DPfR  169 (297)
T COG4785          94 IRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAHLNRGIALYY--GGRYKLAQDDLLAFYQDDPNDPFR  169 (297)
T ss_pred             cCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccC--CcchHHHhccceeeee--cCchHhhHHHHHHHHhcCCCChHH
Confidence            3454 6788888888999999999999999987665  222333333 444444  699999998887776644 11222


Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHH-HHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC------CCcHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIY-TSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC------EPNVRTY  236 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~-~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~------~~~~~~~  236 (404)
                      ..|-.+..   ..-++.+|..-+ ++..    ..|..-|...|-.|.- |++. .+.+++.+..-.-      ..=..||
T Consensus       170 ~LWLYl~E---~k~dP~~A~tnL~qR~~----~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEty  240 (297)
T COG4785         170 SLWLYLNE---QKLDPKQAKTNLKQRAE----KSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETY  240 (297)
T ss_pred             HHHHHHHH---hhCCHHHHHHHHHHHHH----hccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHH
Confidence            34443332   333555555433 3333    2344444443333321 2211 1223333322110      0113456


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          237 STLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       237 ~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      --+..-|...|+.++|..+|+-....
T Consensus       241 FYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         241 FYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHH
Confidence            66777777888888888888776654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=83.05  E-value=23  Score=28.65  Aligned_cols=90  Identities=13%  Similarity=0.102  Sum_probs=55.4

Q ss_pred             HHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHH----HHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHH
Q 015590           98 INKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNV----IKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL  173 (404)
Q Consensus        98 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~  173 (404)
                      ...+...+++++|..-++.....    +.+..+-.+    +.......|.+|+|+.+++.....+.  .......-.+.+
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDil  169 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDIL  169 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHH
Confidence            45666788888888888775422    233333222    22222237888888888877666432  122233445677


Q ss_pred             HhcCcHhHHHHHHHHHHHcC
Q 015590          174 VSAKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g  193 (404)
                      ...|+-++|..-|+.....+
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         170 LAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHcCchHHHHHHHHHHHHcc
Confidence            78888888888888877764

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=82.83  E-value=46  Score=31.90  Aligned_cols=106  Identities=12%  Similarity=0.097  Sum_probs=52.2

Q ss_pred             CCCHHHHHHHHHHHhhCCCCCChh-hHHHHHHHHHhcCChhHHH---HHHHHHHHCCCCCCHHHHHHHHH-----HHHcC
Q 015590          281 QGKVEEGMKLLERMKGKGCYPNSA-SYQEVLYGLLDKKRFPEAK---ELVGRMICERMSPSFVSYKKLIH-----GLCNQ  351 (404)
Q Consensus       281 ~g~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~---~~~~~~~~~~~~p~~~~~~~li~-----~~~~~  351 (404)
                      .|+++.|..+++.+...-  |+.. .-..-+....+.|..+.+.   +++....+.  +-+..+...+.-     .+.-.
T Consensus       379 ~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~--~~~~~i~~~l~~~~~r~~~~i~  454 (577)
T KOG1258|consen  379 NGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEG--KENNGILEKLYVKFARLRYKIR  454 (577)
T ss_pred             hccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccc--ccCcchhHHHHHHHHHHHHHHh
Confidence            466777777777666552  3321 1112223344555555555   222222221  111111222211     23346


Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcc
Q 015590          352 KLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRN  391 (404)
Q Consensus       352 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  391 (404)
                      ++.+.|..++.++.+. +.++...|..+++-+.......+
T Consensus       455 ~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~~~~e  493 (577)
T KOG1258|consen  455 EDADLARIILLEANDI-LPDCKVLYLELIRFELIQPSGRE  493 (577)
T ss_pred             cCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCCcchh
Confidence            7788888888888743 44455567777775555444333

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=82.78  E-value=42  Score=31.47  Aligned_cols=97  Identities=9%  Similarity=0.046  Sum_probs=71.3

Q ss_pred             CCChhhH-HHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH---HcCCChHHHHHHHHHHHHC-CCCCCHH
Q 015590          300 YPNSASY-QEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGL---CNQKLVEDVDWVLKKMVQQ-GFVPRMG  374 (404)
Q Consensus       300 ~p~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~---~~~g~~~~a~~~~~~m~~~-~~~p~~~  374 (404)
                      .|+..++ +.+++-+.+.|-..+|.+.+..+... .+|+...|..+|+.=   ..+| ...++.+++.|... |  .|+.
T Consensus       456 ~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg--~d~~  531 (568)
T KOG2396|consen  456 GADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFG--ADSD  531 (568)
T ss_pred             CCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhC--CChH
Confidence            4455444 45677777888899999999999876 467888888888643   2333 78889999999876 7  6777


Q ss_pred             hHHHHHHhhccCCCCcchhhHHHhhh
Q 015590          375 MWREIVGCVTFGKDNRNRVYVTETVD  400 (404)
Q Consensus       375 ~~~~ll~~~~~~~~~~~~~~~~~~~~  400 (404)
                      .|.-.+.-=...|..+++-.+...-.
T Consensus       532 lw~~y~~~e~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  532 LWMDYMKEELPLGRPENCGQIYWRAM  557 (568)
T ss_pred             HHHHHHHhhccCCCcccccHHHHHHH
Confidence            78877776667788888776655443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=82.54  E-value=12  Score=30.87  Aligned_cols=76  Identities=18%  Similarity=0.215  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC--CCCCcHHHHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ--NCEPNVRTYSTLMHG  242 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~  242 (404)
                      .+..++.+.+.++..+++...++-++.. +.|...-..++..|+-.|+|++|..-++-.-..  ...+....|..+|.+
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3445566667778888888777766664 556666677788888888888887666554332  113445566666654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=82.16  E-value=4.6  Score=21.47  Aligned_cols=24  Identities=29%  Similarity=0.299  Sum_probs=10.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          237 STLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       237 ~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ..+...|.+.|++++|.+.|++..
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            334444444444444444444443

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 ....

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=82.09  E-value=3.2  Score=24.31  Aligned_cols=23  Identities=13%  Similarity=0.199  Sum_probs=12.3

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHH
Q 015590          344 LIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       344 li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      +..+|...|+.+.|+++++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34455555555555555555553

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.68  E-value=16  Score=25.87  Aligned_cols=55  Identities=11%  Similarity=0.114  Sum_probs=35.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN  202 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  202 (404)
                      .|++++|+.+.+.+.    .||...|-.+-.  .+.|..++...-+..+...| .|....|.
T Consensus        52 rG~Yq~Al~l~~~~~----~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        52 RGDYQSALQLGNKLC----YPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTFV  106 (115)
T ss_pred             cchHHHHHHhcCCCC----CchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            677888877777663    477777765543  36666666666666666666 44444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK09687 putative lyase; Provisional

Probab=81.34  E-value=36  Score=29.67  Aligned_cols=137  Identities=13%  Similarity=0.013  Sum_probs=65.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG-NVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                      +..+-...+.++++.++. .+...+-.+.+   .+|...-..-+.++.+.+ +.+.+...+..+...   +|...-...+
T Consensus       141 ~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~  213 (280)
T PRK09687        141 STNVRFAVAFALSVINDE-AAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAI  213 (280)
T ss_pred             CHHHHHHHHHHHhccCCH-HHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHH
Confidence            444444455555555553 33343333333   233333344444444432 233444544444432   3555555666


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLC  349 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  349 (404)
                      .++.+.|+. .+...+-+..+.+   +  .....+.+++..|.. +|...+..+.+.  .||...-...+.+|.
T Consensus       214 ~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        214 IGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             HHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            666666663 3444443333332   1  233556666666664 566666666543  345555555555543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.11  E-value=17  Score=25.76  Aligned_cols=50  Identities=16%  Similarity=0.260  Sum_probs=22.2

Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+...|++++|..+.+.+.    .||...|-++..  .+.|..+++..-+.+|..+
T Consensus        48 SLmNrG~Yq~Al~l~~~~~----~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        48 SLMNRGDYQSALQLGNKLC----YPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHccchHHHHHHhcCCCC----CchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            3444455555554444442    455555544433  2344444444444444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.09  E-value=8.9  Score=33.80  Aligned_cols=53  Identities=15%  Similarity=0.023  Sum_probs=36.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          241 HGLCEKGNVEEAFGLLERMESEGIDA-DTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      +-|.+.|.+++|++.|..-...  .| |.+++..-..+|.+...+..|+.=-....
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai  158 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAI  158 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHH
Confidence            4577888888888888766544  34 77777777777877777776665444444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.16  E-value=59  Score=31.39  Aligned_cols=100  Identities=18%  Similarity=0.130  Sum_probs=55.0

Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG  287 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  287 (404)
                      ..+.|+++.|.++..+..      +..-|..|.++..+.+++..|.+.|.+..         -|..|+-.+...|+-+..
T Consensus       647 al~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~---------d~~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRAR---------DLGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhc---------chhhhhhhhhhcCChhHH
Confidence            345566666665544432      45556666666666666666666665543         234455555556665555


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       288 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      ..+-....+.|.      .|.-.-+|...|+++++.+++.+
T Consensus       712 ~~la~~~~~~g~------~N~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AVLASLAKKQGK------NNLAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHhhcc------cchHHHHHHHcCCHHHHHHHHHh
Confidence            555555444431      12223345556666666666543

---

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	404
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-15
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 77.2 bits (188), Expect = 2e-15
 Identities = 25/188 (13%), Positives = 62/188 (32%), Gaps = 4/188 (2%)

Query: 201 LNILLKGLCENGNLEAAFYVLDEF---PKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE 257
           L    K       L  A ++L       ++     +  Y+ +M G   +G  +E   +L 
Sbjct: 130 LLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLF 189

Query: 258 RMESEGIDADTVTFNILISGLRKQGKVEEGM-KLLERMKGKGCYPNSASYQEVLYGLLDK 316
            ++  G+  D +++   +  + +Q +    + + LE+M  +G    +     +L      
Sbjct: 190 MVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA 249

Query: 317 KRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMW 376
                  ++          P  V+  KL+  +  +        +   +     +    + 
Sbjct: 250 TVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLH 309

Query: 377 REIVGCVT 384
            E+   V 
Sbjct: 310 MELASRVC 317

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.5 bits (150), Expect = 1e-10
 Identities = 25/194 (12%), Positives = 60/194 (30%), Gaps = 13/194 (6%)

Query: 185 IYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC 244
           ++    +    +     N ++ G    G  +   YVL         P++ +Y+  +  + 
Sbjct: 152 VHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG 211

Query: 245 EKGNVEEAFG-LLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS 303
            +          LE+M  EG+    +   +L+S   +   ++   K+          P  
Sbjct: 212 RQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPP 271

Query: 304 ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKK 363
            +  ++L  +  K       +L   +   +                 Q  +E    V   
Sbjct: 272 VNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLF------------EKQLHMELASRVCVV 319

Query: 364 MVQQGFVPRMGMWR 377
            V++  +P   +  
Sbjct: 320 SVEKPTLPSKEVKH 333

>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 = 46.4 bits (109), Expect = 2e-05
 Identities = 64/372 (17%), Positives = 119/372 (31%), Gaps = 114/372 (30%)

Query: 3   LRSHFA-RNHRQS--IIQSLSSASTI------------TRKR--TFALASPSASHQDSDH 45
           LR     + +     ++ ++ +A               TR +  T  L++ + +H   DH
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH 293

Query: 46  HAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYT--LIINKLAQ 103
           H         L+P EV  +             L+   + +D  P E L T    ++ +A+
Sbjct: 294 H------SMTLTPDEVKSLLLK---------YLDC--RPQDL-PREVLTTNPRRLSIIAE 335

Query: 104 AKR-FDAIEDIMQRIKVEKLCRFSDGFFYNVI------KIYGNMAGRI--------SKAI 148
           + R   A  D  + +  +KL    +    NV+      K++  ++  +        +  +
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIES-SLNVLEPAEYRKMFDRLS--VFPPSAHIPTILL 392

Query: 149 ETLFDMPSYNCWPSVKTFN--LVLNLLVSAKL---------YGEIQGIYTSAAKLGVEID 197
             +        W  V   +  +V+N L    L            I  IY           
Sbjct: 393 SLI--------WFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS-IPSIY----------- 432

Query: 198 ACCLNILLKGLCEN-GNLEAAF---Y-VLDEFPKQNCEPNVRT---YSTLMHGLCEKGNV 249
                + LK   EN   L  +    Y +   F   +  P       YS + H L    + 
Sbjct: 433 -----LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHP 487

Query: 250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG----MKLLERMKGKGCY--PNS 303
           E    L   +    +D     F  L   +R            +  L+++K    Y   N 
Sbjct: 488 ER-MTLFRMVF---LD-----FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND 538

Query: 304 ASYQEVLYGLLD 315
             Y+ ++  +LD
Sbjct: 539 PKYERLVNAILD 550

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.3 bits (101), Expect = 1e-04
 Identities = 35/225 (15%), Positives = 73/225 (32%), Gaps = 47/225 (20%)

Query: 58  PTEVLKIFSNLRDPISVISVLNQYSKR----KDYNPNE-ALYTLIINKLAQAKRFDAIED 112
           PT +L +         V+ V+N+  K     K    +  ++ ++ +    + +   A+  
Sbjct: 388 PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHR 447

Query: 113 IM--QRIKVEKLCRFS------DGFFYNVIKIY----GNMAGRISKAIETLFDMPSYNCW 160
            +       +            D +FY+ I  +         R++     LF M      
Sbjct: 448 SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG-HHLKNIEHPERMT-----LFRM------ 495

Query: 161 PSVKTFNLVLNL-LVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN-GNLEAAF 218
                  + L+   +  K+  +      S + L        L      +C+N    E   
Sbjct: 496 -------VFLDFRFLEQKIRHDSTAWNASGSILNTLQQ---LKFYKPYICDNDPKYERLV 545

Query: 219 YVLDEFPKQNCEPN-VRT-YSTLMH-GLCEKGN--VEEAFGLLER 258
             + +F     E N + + Y+ L+   L  +     EEA   ++R
Sbjct: 546 NAILDF-LPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	404
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	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.84
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.84
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.82
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.81
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.74
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.74
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.71
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.71
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.71
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.7
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.68
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.67
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.65
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.64
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.64
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.64
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.63
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.6
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.57
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.54
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.53
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.53
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.52
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.5
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.5
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.49
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.49
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.48
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.44
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.39
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.38
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.36
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.35
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.35
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.34
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.32
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.32
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.3
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.27
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.24
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.24
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.24
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.19
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.16
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.11
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.11
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.1
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.05
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.03
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.03
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.02
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.01
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.0
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.98
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.97
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.97
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.96
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.96
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.96
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.93
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.93
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.92
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.87
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.86
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.84
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.81
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.78
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.76
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.76
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.75
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.75
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.74
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.72
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.7
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.69
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.68
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.68
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.67
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.66
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.66
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.64
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.64
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.64
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.64
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.64
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.62
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.61
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.61
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.6
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.59
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.59
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.59
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.59
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.58
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.55
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.55
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.53
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.52
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.49
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.46
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.46
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.44
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.44
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.43
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.41
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.41
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.4
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.39
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.38
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.38
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.37
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.37
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.36
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.36
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.35
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.35
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.32
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.26
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.25
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.25
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.23
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.22
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.21
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.16
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.16
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.16
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.15
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.13
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.07
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.06
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.05
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.03
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.0
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.98
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.96
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.94
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.9
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.87
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.87
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.85
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.84
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.82
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.8
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.74
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.7
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.69
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.67
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.66
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.61
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.6
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.5
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.46
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.39
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.34
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.31
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.11
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.08
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.98
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.78
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.75
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.67
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.67
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.59
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.54
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.49
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.26
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.17
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.01
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.91
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.79
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.72
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.7
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.54
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.39
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.33
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.1
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.98
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.73
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.55
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.08
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	93.63
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.53
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	93.35
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	93.3
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.27
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	93.2
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.98
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.84
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	92.56
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	92.5
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	92.36
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.85
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	91.57
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.97
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.92
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.65
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	89.01
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.23
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.2
2p58_C	116	Putative type III secretion protein YSCG; type III	86.83
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.39
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	84.92
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	84.78
2p58_C	116	Putative type III secretion protein YSCG; type III	84.46
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	83.05
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	81.49
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	80.75
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.25

>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=1e-34  Score=270.69  Aligned_cols=207  Identities=15%  Similarity=0.164  Sum_probs=160.7

Q ss_pred             HHHHHHHhhcccCCCCccH-HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC---------h
Q 015590          145 SKAIETLFDMPSYNCWPSV-KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN---------L  214 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~---------~  214 (404)
                      ..+..+.+++.+.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3445555666666655443 35777888888888888888888888888888888888888888877654         5


Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      +.|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            77888888888888888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQ  351 (404)
Q Consensus       295 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~  351 (404)
                      .+.|+.||..||++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|...
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            888888888888888888888888888888888888888888888888888887753

>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=7.7e-35  Score=271.54  Aligned_cols=206  Identities=16%  Similarity=0.177  Sum_probs=182.4

Q ss_pred             hHHHHHHHHHHHcCCCCC-HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC---------H
Q 015590          180 GEIQGIYTSAAKLGVEID-ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN---------V  249 (404)
Q Consensus       180 ~~a~~~~~~~~~~g~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~---------~  249 (404)
                      ..+..+.+.+.+.+.... ..+++.+|++|++.|++++|.++|++|.+.|+.||..|||+||.+|++.+.         .
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            445667777777776544 346889999999999999999999999999999999999999999998765         6


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhcc
Q 015590          330 ICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTF  385 (404)
Q Consensus       330 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  385 (404)
                      .+.|+.||..+|++||.+|++.|++++|.+++++|.+.|..|+..||+.++..|..
T Consensus       167 ~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          167 VESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999998765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=7.2e-32  Score=260.25  Aligned_cols=355  Identities=8%  Similarity=-0.073  Sum_probs=258.5

Q ss_pred             CCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHH
Q 015590           35 SPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIM  114 (404)
Q Consensus        35 ~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  114 (404)
                      ..+++...++..+...+.+++..|+.++..|.+.|++++|+.+|+++..   ..|+..++..++.+|.+.|++++|..+|
T Consensus        64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           64 STDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD---ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             ------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh---hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            3455566666777778888899999999999999999999999999974   4678899999999999999999999999


Q ss_pred             HHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhccc-C--------------CCCccHHHHHHHHHHHHhcCcH
Q 015590          115 QRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPS-Y--------------NCWPSVKTFNLVLNLLVSAKLY  179 (404)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-~--------------~~~p~~~~~~~ll~~~~~~~~~  179 (404)
                      +.+...   +.+...+..++..+.. .|++++|+++|+++.. .              |.+++..+|+.++.+|.+.|++
T Consensus       141 ~~~~~~---~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          141 TKEDLY---NRSSACRYLAAFCLVK-LYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHTCGG---GTCHHHHHHHHHHHHH-TTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHhcc---ccchhHHHHHHHHHHH-HhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            987533   2334445555566665 9999999999996433 2              3345688999999999999999


Q ss_pred             hHHHHHHHHHHHcCC-----------------------------------------------------------------
Q 015590          180 GEIQGIYTSAAKLGV-----------------------------------------------------------------  194 (404)
Q Consensus       180 ~~a~~~~~~~~~~g~-----------------------------------------------------------------  194 (404)
                      ++|.++|+++.+.+.                                                                 
T Consensus       217 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          217 DRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            999999999976541                                                                 


Q ss_pred             -----CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 015590          195 -----EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTV  269 (404)
Q Consensus       195 -----~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~  269 (404)
                           +++..+++.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|..+|+++.+.. +.+..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHH
Confidence                 1344555556666666666666666666665544 3455556666666666666666666666665432 23677


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLC  349 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~  349 (404)
                      +|+.++..|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  452 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHM  452 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            88888888888888888888888887653 2356788888888888899999999988888753 457788888888888


Q ss_pred             cCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          350 NQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       350 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      +.|++++|.++|+++.+.. ..+..+|..+...|...|+.+++..+++.+.+
T Consensus       453 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  503 (597)
T 2xpi_A          453 QLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALL  503 (597)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            8999999999998888652 23577888888888888888888888777644

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=3.3e-32  Score=262.60  Aligned_cols=362  Identities=8%  Similarity=-0.029  Sum_probs=221.6

Q ss_pred             hhhhccCCCCCCCCCccchhhc--ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCC--------------CCCCCHH
Q 015590           29 RTFALASPSASHQDSDHHAYKL--NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRK--------------DYNPNEA   92 (404)
Q Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~--------------~~~p~~~   92 (404)
                      .+...+...+....+..++...  .+++..+|+.++.+|.+.|++++|+.+|+++....              +.+++..
T Consensus       122 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  201 (597)
T 2xpi_A          122 WLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEAS  201 (597)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHH
T ss_pred             HHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHH
Confidence            3445556667777777777766  56788899999999999999999999999543322              2344688


Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHH--------------------------------------
Q 015590           93 LYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI--------------------------------------  134 (404)
Q Consensus        93 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l--------------------------------------  134 (404)
                      +|..++.+|.+.|++++|.++|+++...+   |.+...+..+                                      
T Consensus       202 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~  278 (597)
T 2xpi_A          202 MCYLRGQVYTNLSNFDRAKECYKEALMVD---AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLK  278 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC---chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHH
Confidence            99999999999999999999999987654   2222221111                                      


Q ss_pred             HHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC--------------------
Q 015590          135 KIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV--------------------  194 (404)
Q Consensus       135 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--------------------  194 (404)
                      ...+.+.|++++|.++|+++.+.  +++..+|+.++.++.+.|++++|.++|+++.+.+.                    
T Consensus       279 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  356 (597)
T 2xpi_A          279 LNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKN  356 (597)
T ss_dssp             SCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHH
T ss_pred             HHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHH
Confidence            11112367778888888877764  46777788888888888888888888887776541                    


Q ss_pred             -------------CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          195 -------------EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       195 -------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                                   +.+..+++.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|+++|+++.+
T Consensus       357 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  435 (597)
T 2xpi_A          357 KLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR  435 (597)
T ss_dssp             HHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                         2234445555555555555555555555554432 33445555555555555555555555555554


Q ss_pred             CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC
Q 015590          262 EGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPS  337 (404)
Q Consensus       262 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~  337 (404)
                      .+. .+..+|+.++.+|.+.|++++|.++|+++.+.. +.+..+|+.++..|.+.|++++|.++|+++.+.    +..|+
T Consensus       436 ~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          436 LFQ-GTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             TTT-TCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             hCc-cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence            432 244555555555555555555555555555442 124455555555555555555555555555543    33444


Q ss_pred             --HHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhh
Q 015590          338 --FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       338 --~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                        ..+|..++.+|.+.|++++|.++++++.+.+ ..+..+|..+..+|...|+++.+...++.+
T Consensus       514 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  576 (597)
T 2xpi_A          514 PWAATWANLGHAYRKLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHES  576 (597)
T ss_dssp             GGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence              4555555555555555555555555555432 224455555555555555555555555544

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1e-24  Score=198.91  Aligned_cols=302  Identities=11%  Similarity=-0.042  Sum_probs=180.6

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+..+|..+...+.+.|++++|+..|+++++..  +.+..+|..+..++.+.|++++|.+.++.+....   |+....+.
T Consensus        65 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~  139 (388)
T 1w3b_A           65 LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK--PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN---PDLYCVRS  139 (388)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC---TTCTHHHH
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CCcHHHHH
Confidence            344456666666666666666666666665432  3344556666666666666666666666665443   33334444


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG  212 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  212 (404)
                      .+...+...|++++|.+.|+++.+.. +.+..+|..+...+.+.|++++|...|+++.+.. +.+...+..+...+...|
T Consensus       140 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~  217 (388)
T 1w3b_A          140 DLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEAR  217 (388)
T ss_dssp             HHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcC
Confidence            44444444566666666666665533 1234566666666666666666666666666654 344556666666666666


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ++++|...|++..+.. +.+..++..+...|.+.|++++|...|+++.+.+.. +..+|..+...+.+.|++++|...|+
T Consensus       218 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~  295 (388)
T 1w3b_A          218 IFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYN  295 (388)
T ss_dssp             CTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6666666666655543 334556666666666666666666666666655322 34556666666666666666666666


Q ss_pred             HHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          293 RMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       293 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      ++.+.. +.+..++..+...+.+.|++++|.+.++++.+. .+.+..++..+..+|.+.|++++|...|+++.
T Consensus       296 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  366 (388)
T 1w3b_A          296 TALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666542 334556666666666666666666666666553 23345566666666666666666666666666

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.95  E-value=1.4e-24  Score=198.11  Aligned_cols=334  Identities=14%  Similarity=0.040  Sum_probs=286.7

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHH
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYN  132 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~  132 (404)
                      +...+..+...+...|++++|...++...+..  +.+..+|..+...+.+.|++++|...|+++....   |+.. .+.+
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~  106 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK---PDFIDGYIN  106 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC---cchHHHHHH
Confidence            33455667778899999999999999997653  6788999999999999999999999999987654   4444 4455


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      +...+.. .|++++|.+.|+++.+.+  |+ ...+..+...+...|++++|.+.|+++.+.. +.+..+|..+...|.+.
T Consensus       107 l~~~~~~-~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  182 (388)
T 1w3b_A          107 LAAALVA-AGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQ  182 (388)
T ss_dssp             HHHHHHH-HSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHH-cCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            5555555 999999999999998754  54 4577888889999999999999999999875 55688999999999999


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLL  291 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  291 (404)
                      |++++|...|+++.+.+ +.+...|..+...+...|++++|...|++....... +..++..+...|...|++++|...|
T Consensus       183 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~  260 (388)
T 1w3b_A          183 GEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHGNLACVYYEQGLIDLAIDTY  260 (388)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcC-CHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999998876 567788999999999999999999999998876433 5788999999999999999999999


Q ss_pred             HHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 015590          292 ERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       292 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  371 (404)
                      +++.+.+ +.+..+|..+...+.+.|++++|.+.++++.+. .+.+..++..+...+...|++++|...++++.+  ..|
T Consensus       261 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p  336 (388)
T 1w3b_A          261 RRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALE--VFP  336 (388)
T ss_dssp             HHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT--SCT
T ss_pred             HHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCC
Confidence            9999874 225678999999999999999999999999886 366888999999999999999999999999985  445


Q ss_pred             -CHHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          372 -RMGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       372 -~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                       +..++..+..++...|+.+.+...++.+-++
T Consensus       337 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          337 EFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             4668888999999999999999888776543

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=1.8e-23  Score=194.42  Aligned_cols=313  Identities=11%  Similarity=0.026  Sum_probs=259.9

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+...|..+...+.+.|++++|+..|+.+++..  +.+..+|..+..++...|++++|...++.+....   |.....+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~   98 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK---MDFTAARL   98 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CCcHHHHH
Confidence            456678889999999999999999999998653  5678999999999999999999999999988765   44444444


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCcc-H---HHHHHH------------HHHHHhcCcHhHHHHHHHHHHHcCCCC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPS-V---KTFNLV------------LNLLVSAKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      .+...+...|++++|.+.|+++.+.+  |+ .   ..+..+            ...+.+.|++++|...++.+.+.. +.
T Consensus        99 ~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~  175 (450)
T 2y4t_A           99 QRGHLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VW  175 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            44444444999999999999998865  44 3   555555            444889999999999999999875 66


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH--
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNIL--  274 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l--  274 (404)
                      +..++..+..+|.+.|++++|...|+++.+.. +.+..+|..+...|...|++++|+..|+++.+.... +...+..+  
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~  253 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQ  253 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHH
Confidence            88899999999999999999999999998765 667899999999999999999999999999876332 34444444  


Q ss_pred             ----------HHHHHcCCCHHHHHHHHHHHhhCCCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH
Q 015590          275 ----------ISGLRKQGKVEEGMKLLERMKGKGCYPN-----SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV  339 (404)
Q Consensus       275 ----------i~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  339 (404)
                                ...+.+.|++++|...|+++.+.  .|+     ...|..+...+.+.|++++|++.++++.+.. +.+..
T Consensus       254 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~  330 (450)
T 2y4t_A          254 VKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVN  330 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHH
Confidence                      78899999999999999999886  344     4578889999999999999999999998752 44788


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-hHHHHH
Q 015590          340 SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MWREIV  380 (404)
Q Consensus       340 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll  380 (404)
                      .|..+..+|...|++++|...++++.+  +.|+.. .+..+-
T Consensus       331 ~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~  370 (450)
T 2y4t_A          331 ALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLE  370 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            999999999999999999999999994  666643 444443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=1.9e-21  Score=180.66  Aligned_cols=302  Identities=12%  Similarity=0.068  Sum_probs=250.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH-HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHH
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF-FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTF  166 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  166 (404)
                      +.+...+..+...+.+.|++++|..+|+.+....   |.+.. +..+...+.. .|++++|+..|+++.+.+ +.+..++
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~~l~~~~~~-~g~~~~A~~~~~~al~~~-p~~~~~~   97 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD---PDNYIAYYRRATVFLA-MGKSKAALPDLTKVIQLK-MDFTAAR   97 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHH-CCCHHHHHHHHHHHHhcC-CCcHHHH
Confidence            5567889999999999999999999999987654   34444 4444555555 999999999999998865 2356789


Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCH---hHHHHH------------HHHHHhcCChHHHHHHHHHchhCCCCC
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDA---CCLNIL------------LKGLCENGNLEAAFYVLDEFPKQNCEP  231 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~~~~~~  231 (404)
                      ..+...+.+.|++++|.+.|+.+.+.. +.+.   ..+..+            ...+.+.|++++|...|+.+.+.. +.
T Consensus        98 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~  175 (450)
T 2y4t_A           98 LQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VW  175 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CC
Confidence            999999999999999999999999864 3344   555555            444899999999999999998765 66


Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-hhhHHHH-
Q 015590          232 NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN-SASYQEV-  309 (404)
Q Consensus       232 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~l-  309 (404)
                      +..++..+...|.+.|++++|...|+++.+... .+..+|..+...|...|++++|...|+++.+.  .|+ ...+..+ 
T Consensus       176 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~  252 (450)
T 2y4t_A          176 DAELRELRAECFIKEGEPRKAISDLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYK  252 (450)
T ss_dssp             CHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHH
Confidence            888999999999999999999999999987643 36889999999999999999999999999876  333 4444444 


Q ss_pred             -----------HHHHHhcCChhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH
Q 015590          310 -----------LYGLLDKKRFPEAKELVGRMICERMSPS-----FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       310 -----------i~~~~~~g~~~~a~~~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                                 ...+.+.|++++|.+.++++.+.  .|+     ...|..+..++.+.|++++|...++++.+.. ..+.
T Consensus       253 ~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~  329 (450)
T 2y4t_A          253 QVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNV  329 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccH
Confidence                       78899999999999999999875  454     4578888999999999999999999998642 2357


Q ss_pred             HhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          374 GMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       374 ~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      ..|..+..+|...|+.+.+...++..-++
T Consensus       330 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          330 NALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            78999999999999999998888776543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=1.4e-19  Score=162.39  Aligned_cols=311  Identities=10%  Similarity=0.022  Sum_probs=252.9

Q ss_pred             CHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHH
Q 015590           57 SPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKI  136 (404)
Q Consensus        57 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~  136 (404)
                      .|..+...+...|++++|+..|+.+++..  +.+..++..+...+...|++++|...++.+....   |.....+..+..
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~   79 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD--PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK---MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC---CCcchHHHHHHH
Confidence            45667778899999999999999998753  5578899999999999999999999999987654   334444444444


Q ss_pred             HHhhcCCHHHHHHHHhhcccCCCCc----cHHHHHHH------------HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhH
Q 015590          137 YGNMAGRISKAIETLFDMPSYNCWP----SVKTFNLV------------LNLLVSAKLYGEIQGIYTSAAKLGVEIDACC  200 (404)
Q Consensus       137 ~~~~~g~~~~A~~~~~~m~~~~~~p----~~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~  200 (404)
                      .+...|++++|...|++..+..  |    +...+..+            ...+...|++++|.+.++.+.+.. +.+..+
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  156 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAEL  156 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHH
Confidence            4445999999999999998865  5    34455544            578889999999999999999875 667889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH--------
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFN--------  272 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~--------  272 (404)
                      +..+...|...|++++|...++...+.. +.+..+|..+...|...|++++|...|++..+.... +...+.        
T Consensus       157 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~  234 (359)
T 3ieg_A          157 RELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKL  234 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHH
Confidence            9999999999999999999999998875 678889999999999999999999999999876432 333332        


Q ss_pred             ----HHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-h----hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 015590          273 ----ILISGLRKQGKVEEGMKLLERMKGKGCYPN-S----ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKK  343 (404)
Q Consensus       273 ----~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~  343 (404)
                          .+...+.+.|++++|...+++..+..  |+ .    ..+..+...+...|++++|.+.+++..+.. +.+...+..
T Consensus       235 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  311 (359)
T 3ieg_A          235 NKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKD  311 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHH
Confidence                23666889999999999999998863  33 2    235567788999999999999999998862 447889999


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCH-HhHHHHHHh
Q 015590          344 LIHGLCNQKLVEDVDWVLKKMVQQGFVPRM-GMWREIVGC  382 (404)
Q Consensus       344 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~  382 (404)
                      +...+...|++++|...|++..  .+.|+. ..+..+..+
T Consensus       312 ~~~~~~~~g~~~~A~~~~~~a~--~~~p~~~~~~~~l~~~  349 (359)
T 3ieg_A          312 RAEAYLIEEMYDEAIQDYEAAQ--EHNENDQQIREGLEKA  349 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH--TTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH--hcCCCChHHHHHHHHH
Confidence            9999999999999999999999  455663 344444443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=5.1e-20  Score=173.85  Aligned_cols=358  Identities=9%  Similarity=-0.077  Sum_probs=280.4

Q ss_pred             CCCCCCCccchhhcc--cCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHH
Q 015590           37 SASHQDSDHHAYKLN--HKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIM  114 (404)
Q Consensus        37 ~~~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  114 (404)
                      .+....+...|.+.-  .|+...|..+..++.+.|++++|+..|+.+++..  +.+..++..+..++.+.|++++|...|
T Consensus        19 ~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~   96 (514)
T 2gw1_A           19 NKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK--PDYSKVLLRRASANEGLGKFADAMFDL   96 (514)
T ss_dssp             TSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC--hHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            344555555555432  3677888889999999999999999999998753  556789999999999999999999999


Q ss_pred             HHHHhcccCC----------------------------------------------------------------------
Q 015590          115 QRIKVEKLCR----------------------------------------------------------------------  124 (404)
Q Consensus       115 ~~~~~~~~~~----------------------------------------------------------------------  124 (404)
                      +.+.......                                                                      
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (514)
T 2gw1_A           97 SVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELT  176 (514)
T ss_dssp             HHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCC
T ss_pred             HHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHH
Confidence            9987654100                                                                      


Q ss_pred             ------CChHHHHH-HHHHHHh--hcCCHHHHHHHHhhccc-----CCC--------CccHHHHHHHHHHHHhcCcHhHH
Q 015590          125 ------FSDGFFYN-VIKIYGN--MAGRISKAIETLFDMPS-----YNC--------WPSVKTFNLVLNLLVSAKLYGEI  182 (404)
Q Consensus       125 ------~~~~~~~~-~l~~~~~--~~g~~~~A~~~~~~m~~-----~~~--------~p~~~~~~~ll~~~~~~~~~~~a  182 (404)
                            +++...+. ....+..  ..|++++|...|+++.+     ..-        +.+..++..+...+...|++++|
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A  256 (514)
T 2gw1_A          177 FANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGA  256 (514)
T ss_dssp             CSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHH
Confidence                  00011111 1111111  26899999999998876     311        12345788888999999999999


Q ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          183 QGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       183 ~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...++.+.+..  |+..++..+...|...|++++|...++.+.+.. +.+..+|..+...|...|++++|...|++..+.
T Consensus       257 ~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  333 (514)
T 2gw1_A          257 HEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL  333 (514)
T ss_dssp             HHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99999999875  338889999999999999999999999988775 567788999999999999999999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----
Q 015590          263 GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERM-SPS----  337 (404)
Q Consensus       263 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~----  337 (404)
                      ... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+... .++    
T Consensus       334 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~  411 (514)
T 2gw1_A          334 DPE-NIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVG  411 (514)
T ss_dssp             CSS-CSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSC
T ss_pred             Chh-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHH
Confidence            544 56788889999999999999999999988763 22567888999999999999999999999876421 112    


Q ss_pred             HHHHHHHHHHHHc---CCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          338 FVSYKKLIHGLCN---QKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       338 ~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      ...+..+...+..   .|++++|...++++.+.. ..+..++..+..++...|+.+.+...++..-++
T Consensus       412 ~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          412 IAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             SHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3478888999999   999999999999998653 234567778888889999998888877765443

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.87  E-value=4.7e-19  Score=157.29  Aligned_cols=291  Identities=11%  Similarity=-0.040  Sum_probs=196.0

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+...+......+...|++++|+.+|+++++..  +.+...+..++..+...|++++|..+++.+....   |.+...+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~   94 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY---PSNPVSWF   94 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTSTHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC---cCCHHHHH
Confidence            355566777777888888888888888887654  3445566667777788888888888888876653   33333333


Q ss_pred             HHHHHHhhcC-CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          133 VIKIYGNMAG-RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       133 ~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      .+...+...| ++++|.+.|++..+.. +.+...|..+...+...|++++|.+.++.+.+.. +.+...+..+...|...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHH
Confidence            3333333367 7888888888877654 2345677777788888888888888888877764 34456666677778888


Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHcCCC
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG--------IDADTVTFNILISGLRKQGK  283 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~  283 (404)
                      |++++|...+++..+.. +.+..++..+...+...|++++|...|++..+..        ...+..++..+...+...|+
T Consensus       173 ~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          173 NNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             TCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            88888888888777665 5566777777777888888888888877776531        12234566677777777777


Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HcCCC
Q 015590          284 VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGL-CNQKL  353 (404)
Q Consensus       284 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~-~~~g~  353 (404)
                      +++|...+++..+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+..++ ...|+
T Consensus       252 ~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~  320 (330)
T 3hym_B          252 YAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGD  320 (330)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC
T ss_pred             HHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCc
Confidence            777777777766553 2245566666777777777777777777766532 23455555555555 34444

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.86  E-value=5.3e-19  Score=156.90  Aligned_cols=293  Identities=8%  Similarity=-0.056  Sum_probs=240.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHH
Q 015590           87 YNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTF  166 (404)
Q Consensus        87 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~  166 (404)
                      .+.+...+..+...+...|++++|.++++.+....  +............+.. .|++++|...++++.+.. +.+...|
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~-~~~~~~A~~~~~~~~~~~-~~~~~~~   93 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD--PFHASCLPVHIGTLVE-LNKANELFYLSHKLVDLY-PSNPVSW   93 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTTHHHHHHHHHH-HTCHHHHHHHHHHHHHHC-TTSTHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCChhhHHHHHHHHHH-hhhHHHHHHHHHHHHHhC-cCCHHHH
Confidence            35566778888899999999999999999987664  2233344445555555 899999999999998754 2356789


Q ss_pred             HHHHHHHHhcC-cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          167 NLVLNLLVSAK-LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       167 ~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      ..+...+...| ++++|.+.++.+.+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+...|..
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  171 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGL  171 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHH
Confidence            99999999999 9999999999999875 5567889999999999999999999999998775 4566778889999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC--------CCCChhhHHHHHHHHHhcC
Q 015590          246 KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG--------CYPNSASYQEVLYGLLDKK  317 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g  317 (404)
                      .|++++|...|++..+.... +...+..+...+...|++++|...+++..+..        ...+..++..+...+...|
T Consensus       172 ~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          172 TNNSKLAERFFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             TTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             HhhHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            99999999999999887543 67889999999999999999999999987641        1234578999999999999


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHhHHHHHHhh-ccCCCC
Q 015590          318 RFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR-MGMWREIVGCV-TFGKDN  389 (404)
Q Consensus       318 ~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~-~~~~~~  389 (404)
                      ++++|.+.+++..+.. +.+...+..+...+...|++++|...+++..  .+.|+ ...+..+..++ ...|+.
T Consensus       251 ~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al--~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          251 KYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTAL--GLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTT--TTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             CHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHH--ccCCCchHHHHHHHHHHHHHhCch
Confidence            9999999999998763 4467889999999999999999999999988  45564 55666666666 344443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=2.7e-19  Score=168.95  Aligned_cols=335  Identities=11%  Similarity=-0.001  Sum_probs=262.3

Q ss_pred             hccCCCCCCCCCccchhh---cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCC--------------------
Q 015590           32 ALASPSASHQDSDHHAYK---LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYN--------------------   88 (404)
Q Consensus        32 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~--------------------   88 (404)
                      ..+...+....+...+..   +.+.+..+|..+..++.+.|++++|+..|+.+.+..+..                    
T Consensus        47 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  126 (514)
T 2gw1_A           47 ACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKL  126 (514)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHH
Confidence            344445555556655554   344455678889999999999999999999998754211                    


Q ss_pred             --------------------------------------------------------C-CHHHHHHHHHHHHh---cCCch
Q 015590           89 --------------------------------------------------------P-NEALYTLIINKLAQ---AKRFD  108 (404)
Q Consensus        89 --------------------------------------------------------p-~~~~~~~li~~~~~---~~~~~  108 (404)
                                                                              | +...+......+..   .|+++
T Consensus       127 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (514)
T 2gw1_A          127 KEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYD  206 (514)
T ss_dssp             TTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHH
T ss_pred             HHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHH
Confidence                                                                    0 12233333333333   89999


Q ss_pred             HHHHHHHHHHh-----cccCC------CChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcC
Q 015590          109 AIEDIMQRIKV-----EKLCR------FSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAK  177 (404)
Q Consensus       109 ~a~~~~~~~~~-----~~~~~------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  177 (404)
                      +|..+++.+..     ....+      +.....+..+...+...|++++|...|+++.+.+  |+...|..+...+...|
T Consensus       207 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~  284 (514)
T 2gw1_A          207 KADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRN  284 (514)
T ss_dssp             HHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSS
T ss_pred             HHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCC
Confidence            99999999876     31011      2223334444444444999999999999998865  55778999999999999


Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      ++++|...++.+.+.. +.+..++..+...|...|++++|...|+...+.. +.+..++..+...|...|++++|...|+
T Consensus       285 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  362 (514)
T 2gw1_A          285 DSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFS  362 (514)
T ss_dssp             CCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999999875 5577889999999999999999999999998875 5577889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC-CCC----hhhHHHHHHHHHh---cCChhHHHHHHHHH
Q 015590          258 RMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC-YPN----SASYQEVLYGLLD---KKRFPEAKELVGRM  329 (404)
Q Consensus       258 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~---~g~~~~a~~~~~~~  329 (404)
                      ++.+.... +...+..+...+...|++++|...++++.+... .++    ...+..+...+..   .|++++|.+.++++
T Consensus       363 ~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a  441 (514)
T 2gw1_A          363 EAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKA  441 (514)
T ss_dssp             HHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHH
T ss_pred             HHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHH
Confidence            99876433 567889999999999999999999999876521 112    3388999999999   99999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 015590          330 ICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG  374 (404)
Q Consensus       330 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  374 (404)
                      .+.. +.+...+..+...|...|++++|...|++..+.  .|+..
T Consensus       442 ~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~  483 (514)
T 2gw1_A          442 SKLD-PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL--ARTME  483 (514)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSHH
T ss_pred             HHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--ccccH
Confidence            8763 456788899999999999999999999999964  45544

>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=99.86  E-value=2e-18  Score=164.02  Aligned_cols=358  Identities=11%  Similarity=-0.026  Sum_probs=261.0

Q ss_pred             ccCCCCCCCCCccchhhc---ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchH
Q 015590           33 LASPSASHQDSDHHAYKL---NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDA  109 (404)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~  109 (404)
                      .+...+....+...+...   .+.+...|..+..+|.+.|++++|+..|+++++..  +.+..++..+..++...|++++
T Consensus        34 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~  111 (537)
T 3fp2_A           34 HFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK--PDHSKALLRRASANESLGNFTD  111 (537)
T ss_dssp             HHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHHcCCHHH
Confidence            344456777777777653   44567778888889999999999999999998754  5578888999999999999999


Q ss_pred             HHHHHHHHHhcccCCCChHH------------------------------------------------------------
Q 015590          110 IEDIMQRIKVEKLCRFSDGF------------------------------------------------------------  129 (404)
Q Consensus       110 a~~~~~~~~~~~~~~~~~~~------------------------------------------------------------  129 (404)
                      |...|+.+.... . ..+..                                                            
T Consensus       112 A~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (537)
T 3fp2_A          112 AMFDLSVLSLNG-D-FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNY  189 (537)
T ss_dssp             HHHHHHHHC-------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSS
T ss_pred             HHHHHHHHhcCC-C-CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhcccc
Confidence            999997442221 1 11100                                                            


Q ss_pred             ------HHHHHHHHHh--------hcCCHHHHHHHHhhcccCCCCcc--------HHHHHHHHHHHHhcCcHhHHHHHHH
Q 015590          130 ------FYNVIKIYGN--------MAGRISKAIETLFDMPSYNCWPS--------VKTFNLVLNLLVSAKLYGEIQGIYT  187 (404)
Q Consensus       130 ------~~~~l~~~~~--------~~g~~~~A~~~~~~m~~~~~~p~--------~~~~~~ll~~~~~~~~~~~a~~~~~  187 (404)
                            +...+.....        ..|++++|..+|+++.+..  |+        ..++..+...+...|++++|...++
T Consensus       190 ~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~  267 (537)
T 3fp2_A          190 DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQ  267 (537)
T ss_dssp             CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHH
Confidence                  1111111111        1247888888888887754  43        2346666777888899999999999


Q ss_pred             HHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 015590          188 SAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD  267 (404)
Q Consensus       188 ~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~  267 (404)
                      .+.+..  |+..++..+...|...|++++|...|+.+.+.. +.+..+|..+...+...|++++|...|++..+.... +
T Consensus       268 ~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~  343 (537)
T 3fp2_A          268 ESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPE-N  343 (537)
T ss_dssp             HHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-C
T ss_pred             HHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC-C
Confidence            998874  557888888889999999999999999887765 566788889999999999999999999998876433 5


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-----CCCCHHHHH
Q 015590          268 TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER-----MSPSFVSYK  342 (404)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~p~~~~~~  342 (404)
                      ...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+..     .......+.
T Consensus       344 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  422 (537)
T 3fp2_A          344 VYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLI  422 (537)
T ss_dssp             SHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHH
Confidence            6778888889999999999999999888763 2356688888888999999999999998887542     111223344


Q ss_pred             HHHHHHHcC----------CChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          343 KLIHGLCNQ----------KLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       343 ~li~~~~~~----------g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      ....++...          |++++|...+++..+.. ..+...+..+-.++...|+.+.+...++..-++
T Consensus       423 ~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          423 GKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            445666666          88999999998888642 224567777778888888888887777765443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=5.3e-18  Score=152.14  Aligned_cols=301  Identities=11%  Similarity=0.065  Sum_probs=242.9

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNL  168 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  168 (404)
                      +...+..+...+...|++++|...++.+....   |.+. .+..+...+.. .|++++|...|+++.+.. +.+...|..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~---p~~~~~~~~~a~~~~~-~~~~~~A~~~~~~~~~~~-~~~~~~~~~   76 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD---PDNYIAYYRRATVFLA-MGKSKAALPDLTKVIALK-MDFTAARLQ   76 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC---cccHHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhC-CCcchHHHH
Confidence            45677888999999999999999999987654   3444 44444455554 999999999999998754 235678999


Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCC---CCHhHHHHH------------HHHHHhcCChHHHHHHHHHchhCCCCCcH
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVE---IDACCLNIL------------LKGLCENGNLEAAFYVLDEFPKQNCEPNV  233 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~---~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~~~~~~~~  233 (404)
                      +...+...|++++|...++.+.+.. +   .+...+..+            ...+...|++++|...++.+.+.. +.+.
T Consensus        77 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~  154 (359)
T 3ieg_A           77 RGHLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDA  154 (359)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCch
Confidence            9999999999999999999999874 3   345555544            588999999999999999998775 6678


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHH------
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQ------  307 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~------  307 (404)
                      ..+..+...+...|++++|...+++..+.... +..++..+...+...|++++|...|++..+... .+...+.      
T Consensus       155 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~  232 (359)
T 3ieg_A          155 ELRELRAECFIKEGEPRKAISDLKAASKLKSD-NTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVK  232 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHH
Confidence            89999999999999999999999999887433 778899999999999999999999999987631 2333333      


Q ss_pred             ------HHHHHHHhcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC-CHHhH
Q 015590          308 ------EVLYGLLDKKRFPEAKELVGRMICERMSPSF----VSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP-RMGMW  376 (404)
Q Consensus       308 ------~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~  376 (404)
                            .+...+.+.|++++|.+.++++.+.. +.+.    ..+..+..++...|++++|...+++..+.  .| +...|
T Consensus       233 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  309 (359)
T 3ieg_A          233 KLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM--EPDNVNAL  309 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CcccHHHH
Confidence                  23666889999999999999998863 2233    23455778999999999999999999875  34 56788


Q ss_pred             HHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          377 REIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       377 ~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      ..+-.++...|+.+.+...++..-++
T Consensus       310 ~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          310 KDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            88888999999999998888776543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.84  E-value=3.6e-19  Score=160.75  Aligned_cols=291  Identities=11%  Similarity=-0.046  Sum_probs=189.5

Q ss_pred             HhcCCChhHHHH-HHHHHhhCCCCCC--CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           65 FSNLRDPISVIS-VLNQYSKRKDYNP--NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        65 ~~~~~~~~~a~~-~~~~~~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      +...|++++|+. .|++..+...-.|  +...+..+...+.+.|++++|...++.+....   |.+...+..+...+...
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~l~~~~~~~  111 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD---PKHMEAWQYLGTTQAEN  111 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC---TTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHC
Confidence            334567777777 7776654322222  34557777778888888888888888876553   33333333333333347


Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHH---------------HHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNI---------------LLK  206 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~---------------li~  206 (404)
                      |++++|...|+++.+.+ +.+..++..+...+...|++++|...++.+.+.. +.+...+..               .+.
T Consensus       112 g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (368)
T 1fch_A          112 EQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILG  189 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTH
T ss_pred             cCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHH
Confidence            88888888888777654 2356677788888888888888888888887764 222222221               133


Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEP--NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKV  284 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  284 (404)
                      .+...|++++|...|+++.+.. +.  +..++..+...|.+.|++++|...|+++.+.... +..+|..+...+...|++
T Consensus       190 ~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          190 SLLSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHhhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHcCCH
Confidence            3337788888888888777654 22  4677777888888888888888888877765322 566777788888888888


Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC----------CCHHHHHHHHHHHHcCCCh
Q 015590          285 EEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS----------PSFVSYKKLIHGLCNQKLV  354 (404)
Q Consensus       285 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----------p~~~~~~~li~~~~~~g~~  354 (404)
                      ++|...|+++.+.. +.+...+..+...+.+.|++++|.+.++++.+....          ....+|..+..+|...|+.
T Consensus       268 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  346 (368)
T 1fch_A          268 EEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQS  346 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCG
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCCh
Confidence            88888888877653 234667777788888888888888888777654211          1156777788888888888


Q ss_pred             HHHHHHHHH
Q 015590          355 EDVDWVLKK  363 (404)
Q Consensus       355 ~~a~~~~~~  363 (404)
                      ++|..++++
T Consensus       347 ~~A~~~~~~  355 (368)
T 1fch_A          347 DAYGAADAR  355 (368)
T ss_dssp             GGHHHHHTT
T ss_pred             HhHHHhHHH
Confidence            888777653

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.84  E-value=6.7e-21  Score=183.28  Aligned_cols=117  Identities=16%  Similarity=0.156  Sum_probs=63.5

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHch---hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFP---KQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNIL  274 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l  274 (404)
                      ..||+++|++|++.|++++|.++|++|.   ..|+.||++|||+||++|++.|++++|.++|++|.+.|+.||.+|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            3455555555555555555555554433   2345555555555555555555555555555555555555555555555


Q ss_pred             HHHHHcCCC-HHHHHHHHHHHhhCCCCCChhhHHHHHHHHH
Q 015590          275 ISGLRKQGK-VEEGMKLLERMKGKGCYPNSASYQEVLYGLL  314 (404)
Q Consensus       275 i~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  314 (404)
                      |.++|+.|+ .++|.++|++|.+.|+.||..+|++++.++.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~e  247 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEED  247 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhh
Confidence            555555554 2455555555555555555555555554433

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=1.2e-18  Score=157.26  Aligned_cols=234  Identities=14%  Similarity=0.011  Sum_probs=129.7

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+...|..+...+.+.|++++|+..|+++++..  +.+..+|..+...+...|++++|...|+++....   |.+...+.
T Consensus        63 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~  137 (365)
T 4eqf_A           63 KDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD--PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ---PNNLKALM  137 (365)
T ss_dssp             TTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC---CCCHHHHH
Confidence            345567777777777777777777777776543  4566777777777777777777777777766543   33333333


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccHH-HH----------HHHHHHHHhcCcHhHHHHHHHHHHHcCCCC--CHh
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSVK-TF----------NLVLNLLVSAKLYGEIQGIYTSAAKLGVEI--DAC  199 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-~~----------~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~--~~~  199 (404)
                      .+...+...|++++|+..|+++.+..  |+.. .+          ..+...+...|++++|.+.++++.+.. +.  +..
T Consensus       138 ~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~  214 (365)
T 4eqf_A          138 ALAVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPD  214 (365)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHH
T ss_pred             HHHHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHH
Confidence            33333333777777777777766532  3221 12          223455555666666666666665543 22  455


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      ++..+...|...|++++|...|++..+.. +.+..+|..+...|.+.|++++|...|++..+.... +..+|..+...|.
T Consensus       215 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~  292 (365)
T 4eqf_A          215 LQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPG-FIRSRYNLGISCI  292 (365)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHH
Confidence            55555555555566666666555555443 334555555555555555555555555555544211 3444555555555


Q ss_pred             cCCCHHHHHHHHHHHhh
Q 015590          280 KQGKVEEGMKLLERMKG  296 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~  296 (404)
                      +.|++++|...|+++.+
T Consensus       293 ~~g~~~~A~~~~~~al~  309 (365)
T 4eqf_A          293 NLGAYREAVSNFLTALS  309 (365)
T ss_dssp             HHTCCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            55555555555555443

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=5.4e-18  Score=153.00  Aligned_cols=265  Identities=14%  Similarity=0.032  Sum_probs=218.7

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH-H
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY-N  132 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~  132 (404)
                      +...+..+...+.+.|++++|+..|+++++..  +.+..++..+...+...|++++|...++.+....   |.+...+ .
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~  137 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK---PDNQTALMA  137 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC---CCCHHHHHH
Confidence            56778889999999999999999999998764  5678899999999999999999999999987664   3344444 4


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccH-HHHHH---------------HHHHHHhcCcHhHHHHHHHHHHHcCCCC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSV-KTFNL---------------VLNLLVSAKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~---------------ll~~~~~~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      +...+.. .|++++|.+.|+++....  |+. ..+..               .+..+...|++++|...++.+.+.. +.
T Consensus       138 l~~~~~~-~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~  213 (368)
T 1fch_A          138 LAVSFTN-ESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLD-PT  213 (368)
T ss_dssp             HHHHHHH-TTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHH-cCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhC-cC
Confidence            4445554 999999999999988754  332 22221               2344448999999999999999875 33


Q ss_pred             --CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 015590          197 --DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNIL  274 (404)
Q Consensus       197 --~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l  274 (404)
                        +..++..+...|.+.|++++|...|+++.+.. +.+..+|..+...|.+.|++++|...|+++.+... .+...+..+
T Consensus       214 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l  291 (368)
T 1fch_A          214 SIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQP-GYIRSRYNL  291 (368)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHH
Confidence              58899999999999999999999999988765 56788999999999999999999999999987643 367889999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhCCCC----------CChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGKGCY----------PNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~~~~----------p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ...|.+.|++++|...|++..+....          ....+|..+..++...|+.++|..++.+.
T Consensus       292 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          292 GISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            99999999999999999998765211          12678999999999999999999988744

>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=99.82  E-value=5.7e-18  Score=160.80  Aligned_cols=255  Identities=11%  Similarity=0.023  Sum_probs=208.1

Q ss_pred             CCchHHHHHHHHHHhcccCCCChHH-------HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcC
Q 015590          105 KRFDAIEDIMQRIKVEKLCRFSDGF-------FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAK  177 (404)
Q Consensus       105 ~~~~~a~~~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  177 (404)
                      |++++|..+++.+....   |.+..       .+..+..++...|++++|...|++..+..  |+...|..+...+...|
T Consensus       216 ~~~~~A~~~~~~~l~~~---p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~  290 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSAN---TVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKE  290 (537)
T ss_dssp             HHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSS
T ss_pred             HHHHHHHHHHHHHHHHC---CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhc
Confidence            47888999999887654   33221       23333334444899999999999998854  77788999999999999


Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      ++++|...++.+.+.. +.+..++..+...|...|++++|...|+...+.. +.+..+|..+...|...|++++|...|+
T Consensus       291 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  368 (537)
T 3fp2_A          291 NSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFN  368 (537)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999999875 5678899999999999999999999999998775 5567889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC-----CCCChhhHHHHHHHHHhc----------CChhHH
Q 015590          258 RMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG-----CYPNSASYQEVLYGLLDK----------KRFPEA  322 (404)
Q Consensus       258 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~----------g~~~~a  322 (404)
                      ++.+.... +...+..+...+...|++++|...|+++.+..     .......+......+...          |++++|
T Consensus       369 ~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A  447 (537)
T 3fp2_A          369 ETKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAA  447 (537)
T ss_dssp             HHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHH
T ss_pred             HHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHH
Confidence            99887433 56788999999999999999999999987652     111122244445667777          999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCC
Q 015590          323 KELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQG  368 (404)
Q Consensus       323 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  368 (404)
                      ...++++.+.. +.+...+..+..+|...|++++|...|++..+..
T Consensus       448 ~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          448 IKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            99999998863 4567889999999999999999999999999653

>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=99.82  E-value=4.4e-18  Score=150.79  Aligned_cols=234  Identities=11%  Similarity=0.013  Sum_probs=139.2

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .+...|......+...|++++|+..|+.+.+..  +.+...+..+...+...|++++|...++.+....   |.+...+.
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~---~~~~~~~~   93 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAA--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD---PKDIAVHA   93 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---cCCHHHHH
Confidence            456677888888999999999999999987653  4577888888899999999999999999887654   33333333


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccCCCCccH-HHHHHH--------------HH-HHHhcCcHhHHHHHHHHHHHcCCCC
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSYNCWPSV-KTFNLV--------------LN-LLVSAKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      .+...+...|++++|.+.|++..+..  |+. ..+..+              .. .+...|++++|.+.++.+.+.. +.
T Consensus        94 ~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~  170 (327)
T 3cv0_A           94 ALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PN  170 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CC
Confidence            33333334888888888888877643  332 223222              11 2444555555666555555543 33


Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIS  276 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~  276 (404)
                      +..++..+...|.+.|++++|...++++.+.. +.+..+|..+...+...|++++|...|+++.+.... +..++..+..
T Consensus       171 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~  248 (327)
T 3cv0_A          171 DAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPG-YVRVMYNMAV  248 (327)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHH
Confidence            45555555555555555555555555554443 334445555555555555555555555555443211 3344444455


Q ss_pred             HHHcCCCHHHHHHHHHHHhh
Q 015590          277 GLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~  296 (404)
                      .|...|++++|...|++..+
T Consensus       249 ~~~~~g~~~~A~~~~~~a~~  268 (327)
T 3cv0_A          249 SYSNMSQYDLAAKQLVRAIY  268 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHH
Confidence            55555555555555554443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=1.9e-20  Score=180.12  Aligned_cols=153  Identities=14%  Similarity=0.071  Sum_probs=127.4

Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhH
Q 015590          230 EPNVRTYSTLMHGLCEKGNVEEAFGLLERMES---EGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASY  306 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~---~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  306 (404)
                      .--..|||++|++|++.|++++|..+|++|.+   .|+.||.+|||+||.+||+.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            34567999999999999999999999988764   589999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCh-hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC------HHhHHHH
Q 015590          307 QEVLYGLLDKKRF-PEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR------MGMWREI  379 (404)
Q Consensus       307 ~~li~~~~~~g~~-~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~------~~~~~~l  379 (404)
                      +++|.++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.+    +++..+++ .-++.|+      ..+...|
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL  278 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTSKLL  278 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCCTTT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccchHHH
Confidence            9999999999985 789999999999999999999999987665543    33333333 2366665      3344455


Q ss_pred             HHhhccCC
Q 015590          380 VGCVTFGK  387 (404)
Q Consensus       380 l~~~~~~~  387 (404)
                      ..-|...+
T Consensus       279 ~dl~s~d~  286 (1134)
T 3spa_A          279 RDVYAKDG  286 (1134)
T ss_dssp             HHHHCCCS
T ss_pred             HHHHccCC
Confidence            55555444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.81  E-value=2.2e-18  Score=155.53  Aligned_cols=266  Identities=12%  Similarity=-0.060  Sum_probs=202.4

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLV  169 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  169 (404)
                      +...+..+...+.+.|++++|...|+.+....   |.+...+..+...+...|++++|+..|++..+.. +.+..+|..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD---PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            34558888899999999999999999987654   3444444444444444899999999999988754 2357789999


Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCH----------hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC--cHHHHH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDA----------CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP--NVRTYS  237 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~----------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~  237 (404)
                      ...+...|++++|...++++.+.. +.+.          ..+..+...|.+.|++++|...|+++.+.. +.  +..+|.
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~  217 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQT  217 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHH
Confidence            999999999999999999998764 2222          233445788889999999999999988764 33  678899


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKK  317 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  317 (404)
                      .+...|.+.|++++|...|++..+.... +..+|..+...|...|++++|...|++..+.. +.+..++..+...|.+.|
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            9999999999999999999998876433 67889999999999999999999999988763 224778888999999999


Q ss_pred             ChhHHHHHHHHHHHCCCC-----------CCHHHHHHHHHHHHcCCChHHHHHHHHH
Q 015590          318 RFPEAKELVGRMICERMS-----------PSFVSYKKLIHGLCNQKLVEDVDWVLKK  363 (404)
Q Consensus       318 ~~~~a~~~~~~~~~~~~~-----------p~~~~~~~li~~~~~~g~~~~a~~~~~~  363 (404)
                      ++++|.+.++++.+....           .+...|..+..++...|+.+.+..+.++
T Consensus       296 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          296 AYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             CCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999988764211           1356788888899999998888776654

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.80  E-value=1.1e-17  Score=148.16  Aligned_cols=267  Identities=8%  Similarity=-0.073  Sum_probs=209.7

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLV  169 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  169 (404)
                      +...+..+...+...|++++|..+++.+....   |.+...+..+...+...|++++|.+.|+++.+.. +.+..++..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   95 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA---PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAAL   95 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHH
Confidence            34456778888999999999999999987654   3344444444444444999999999999988754 2456788889


Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHH--------------HH-HHHhcCChHHHHHHHHHchhCCCCCcHH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNIL--------------LK-GLCENGNLEAAFYVLDEFPKQNCEPNVR  234 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l--------------i~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~  234 (404)
                      ...+...|++++|.+.++.+.+.. +.+...+..+              .. .+...|++++|...++++.+.. +.+..
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  173 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQ  173 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHH
Confidence            999999999999999999998764 3333344333              22 3777889999999999988765 55788


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLL  314 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  314 (404)
                      ++..+...|...|++++|...++++.+.... +..+|..+...+...|++++|...|+++.+.. +.+...+..+...+.
T Consensus       174 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~  251 (327)
T 3cv0_A          174 LHASLGVLYNLSNNYDSAAANLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYS  251 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            8999999999999999999999998876432 57788899999999999999999999988763 235778889999999


Q ss_pred             hcCChhHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          315 DKKRFPEAKELVGRMICERMSP-----------SFVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       315 ~~g~~~~a~~~~~~~~~~~~~p-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                      ..|++++|.+.++++.+.....           +...|..+..++...|++++|..++++.
T Consensus       252 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          252 NMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            9999999999999988753221           4678888899999999999999888754

>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=99.76  E-value=5.7e-18  Score=151.39  Aligned_cols=285  Identities=12%  Similarity=0.082  Sum_probs=134.1

Q ss_pred             ccCCCCCCCCCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHH
Q 015590           33 LASPSASHQDSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIED  112 (404)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  112 (404)
                      +....++...+...++++++|+  +|..+..++.+.|++++|++.|.+.       +|..+|..++..+...|++++|+.
T Consensus        12 ll~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           12 LIEHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4456777888888899998775  8999999999999999999999753       577799999999999999999999


Q ss_pred             HHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc
Q 015590          113 IMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL  192 (404)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  192 (404)
                      +++...+..   ++..+...++..+.+ .|+++++.++++.       |+..+|+.+...|...|.+++|..+|..+   
T Consensus        83 yl~~ark~~---~~~~i~~~Li~~Y~K-lg~l~e~e~f~~~-------pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---  148 (449)
T 1b89_A           83 YLQMARKKA---RESYVETELIFALAK-TNRLAELEEFING-------PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---  148 (449)
T ss_dssp             ------------------------------CHHHHTTTTTC-------C----------------CTTTHHHHHHHT---
T ss_pred             HHHHHHHhC---ccchhHHHHHHHHHH-hCCHHHHHHHHcC-------CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---
Confidence            888776532   233444556666666 9999999888852       77789999999999999999999999976   


Q ss_pred             CCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 015590          193 GVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFN  272 (404)
Q Consensus       193 g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~  272 (404)
                            ..|..++.++.+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+.   .  .+.-..
T Consensus       149 ------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~--~ad~l~  211 (449)
T 1b89_A          149 ------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---V--HADELE  211 (449)
T ss_dssp             ------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---T--CHHHHH
T ss_pred             ------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---h--CHhhHH
Confidence                  48999999999999999999999988      278999999999999999999966655432   2  333455


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC-CCCC------CHHHHHHHH
Q 015590          273 ILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE-RMSP------SFVSYKKLI  345 (404)
Q Consensus       273 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-~~~p------~~~~~~~li  345 (404)
                      .++..|.+.|++++|..+++...... +-....|+.|.-.|++- ++++..+.++..... +++|      +...|.-+.
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~  289 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELV  289 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHH
Confidence            78999999999999999999998775 45677888887777765 344444444433222 2222      345688888


Q ss_pred             HHHHcCCChHHHHH
Q 015590          346 HGLCNQKLVEDVDW  359 (404)
Q Consensus       346 ~~~~~~g~~~~a~~  359 (404)
                      -.|.+.++++.|..
T Consensus       290 ~ly~~~~e~d~A~~  303 (449)
T 1b89_A          290 FLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHTTCHHHHHH
T ss_pred             HHHHhhchHHHHHH
Confidence            88888999988775

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=8.6e-16  Score=133.75  Aligned_cols=211  Identities=12%  Similarity=0.093  Sum_probs=100.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-CCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-EIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .|+++.|+..++..    -+|+..++..+...+...++.++|++.++++...+. +-+...+..+...|...|++++|.+
T Consensus        47 ~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~  122 (291)
T 3mkr_A           47 QRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALR  122 (291)
T ss_dssp             TTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            45555555444331    123444455555555555555555555555554432 2233344444455555555555555


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH---HHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTF---NILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      .+++      +.+...+..+...|.+.|++++|...|+++.+..  |+....   ...+..+...|++++|..+|+++.+
T Consensus       123 ~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~  194 (291)
T 3mkr_A          123 TLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMAD  194 (291)
T ss_dssp             HHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH
T ss_pred             HHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH
Confidence            5544      2344455555555555555555555555554442  222111   1122222333555555555555554


Q ss_pred             CCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHH-HHHHHHHHH
Q 015590          297 KGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVED-VDWVLKKMV  365 (404)
Q Consensus       297 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~  365 (404)
                      .. +.+...++.+..++.+.|++++|.+.++++.+.. +-+..++..++..+...|+.++ +.++++++.
T Consensus       195 ~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~  262 (291)
T 3mkr_A          195 KC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLK  262 (291)
T ss_dssp             HS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             hC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            42 2344455555555555555555555555554431 2244455555555555555543 344555544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.74  E-value=7.8e-16  Score=134.00  Aligned_cols=273  Identities=9%  Similarity=0.049  Sum_probs=208.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCH--HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNE--ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN  139 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~  139 (404)
                      |+-....|+++.|+..++....   ..|+.  .....+..+|...|+++.|...++.   .   .+++......+..++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~---~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~---~~~~~~a~~~la~~~~   76 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP---SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S---SAPELQAVRMFAEYLA   76 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC---CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T---SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhccc---CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c---CChhHHHHHHHHHHHc
Confidence            4456678999999999987632   34443  4556778999999999999876644   1   2345555556666666


Q ss_pred             hcCCHHHHHHHHhhcccCCCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAF  218 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~  218 (404)
                      ..|+.++|++.++++...+..| +...+..+...+...|++++|++.++.      +.+...+..+...|.+.|++++|.
T Consensus        77 ~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~  150 (291)
T 3mkr_A           77 SHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLAR  150 (291)
T ss_dssp             CSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            6899999999999988765445 455677777899999999999999987      567889999999999999999999


Q ss_pred             HHHHHchhCCCCCcHHHH---HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          219 YVLDEFPKQNCEPNVRTY---STLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      +.|+.+.+..  |+....   ..++..+...|++++|..+|+++.+.. +.+...|+.+..++.+.|++++|...|++..
T Consensus       151 ~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al  227 (291)
T 3mkr_A          151 KELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEAL  227 (291)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998874  443211   223344455689999999999998874 3478899999999999999999999999988


Q ss_pred             hCCCCCChhhHHHHHHHHHhcCChhH-HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHH
Q 015590          296 GKGCYPNSASYQEVLYGLLDKKRFPE-AKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVD  358 (404)
Q Consensus       296 ~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  358 (404)
                      +.. +-+..++..++..+...|+.++ +.++++++.+.  .|+...   +.+...+.+.++++.
T Consensus       228 ~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~---~~d~~~~~~~fd~~~  285 (291)
T 3mkr_A          228 DKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPF---IKEYRAKENDFDRLV  285 (291)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHH---HHHHHHHHHHHHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChH---HHHHHHHHHHHHHHH
Confidence            874 2367889999999999999976 67899998875  455433   223344444444443

>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=99.74  E-value=2.3e-17  Score=147.49  Aligned_cols=282  Identities=10%  Similarity=0.076  Sum_probs=131.3

Q ss_pred             hcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHH
Q 015590           66 SNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRIS  145 (404)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  145 (404)
                      .+.|+.++|.++++++.       ++.+|..++.++.+.|++++|++.|.+..       +...+..++..+.. .|+++
T Consensus        14 ~~~~~ld~A~~fae~~~-------~~~vWs~La~A~l~~g~~~eAIdsfika~-------D~~~y~~V~~~ae~-~g~~E   78 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCN-------EPAVWSQLAKAQLQKGMVKEAIDSYIKAD-------DPSSYMEVVQAANT-SGNWE   78 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCC-------ChHHHHHHHHHHHHcCCHHHHHHHHHcCC-------CHHHHHHHHHHHHh-CCCHH
Confidence            35678999999999882       23599999999999999999999997641       23345555555555 99999


Q ss_pred             HHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHch
Q 015590          146 KAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       146 ~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  225 (404)
                      +|...++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+.+.|...|++++|...|..+ 
T Consensus        79 eAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-  148 (449)
T 1b89_A           79 ELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-  148 (449)
T ss_dssp             --------------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-
T ss_pred             HHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-
Confidence            999977777663  3667889999999999999999998885       477789999999999999999999999987 


Q ss_pred             hCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhh
Q 015590          226 KQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSAS  305 (404)
Q Consensus       226 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~  305 (404)
                              ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.-
T Consensus       149 --------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~  209 (449)
T 1b89_A          149 --------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADE  209 (449)
T ss_dssp             --------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHH
T ss_pred             --------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhh
Confidence                    37999999999999999999999998      278999999999999999999966555422     34444


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC-CCCC------CHHhHHH
Q 015590          306 YQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ-GFVP------RMGMWRE  378 (404)
Q Consensus       306 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p------~~~~~~~  378 (404)
                      ...++..|.+.|++++|..+++...... +-....|+-+.-+|++-+ +++..+-++...++ ++.|      +...|..
T Consensus       210 l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~-p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e  287 (449)
T 1b89_A          210 LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAE  287 (449)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcC-HHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            5678999999999999999999998654 556678888877777653 44444444433332 4444      3446777


Q ss_pred             HHHhhccCCCCcchh
Q 015590          379 IVGCVTFGKDNRNRV  393 (404)
Q Consensus       379 ll~~~~~~~~~~~~~  393 (404)
                      +.-.|...++++++.
T Consensus       288 ~~~ly~~~~e~d~A~  302 (449)
T 1b89_A          288 LVFLYDKYEEYDNAI  302 (449)
T ss_dssp             HHHHHHHTTCHHHHH
T ss_pred             HHHHHHhhchHHHHH
Confidence            777776667666554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.71  E-value=3.7e-13  Score=126.32  Aligned_cols=313  Identities=11%  Similarity=-0.020  Sum_probs=173.1

Q ss_pred             CHHHHHHHHhc----CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHh----cCCchHHHHHHHHHHhcccCCCChH
Q 015590           57 SPTEVLKIFSN----LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQ----AKRFDAIEDIMQRIKVEKLCRFSDG  128 (404)
Q Consensus        57 ~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  128 (404)
                      ++..+-..|..    .+++++|+..|++..+.    .+...+..+...|..    .+++++|...|+.....+    ...
T Consensus        77 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~  148 (490)
T 2xm6_A           77 AEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK----GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG----RDS  148 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT----CHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHH
Confidence            44444445554    55555555555555432    144445555555555    455556666665554432    112


Q ss_pred             HHHHHHHHHHh---hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh----cCcHhHHHHHHHHHHHcCCCCCHhHH
Q 015590          129 FFYNVIKIYGN---MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS----AKLYGEIQGIYTSAAKLGVEIDACCL  201 (404)
Q Consensus       129 ~~~~~l~~~~~---~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~  201 (404)
                      ...++-..+..   ..+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|+...+.|   +...+
T Consensus       149 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  222 (490)
T 2xm6_A          149 GQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQ  222 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHH
Confidence            22222222221   0345666666666555543   34455555555555    556666666666665543   34455


Q ss_pred             HHHHHHHHh----cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 015590          202 NILLKGLCE----NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFNI  273 (404)
Q Consensus       202 ~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~  273 (404)
                      ..+...|..    .+++++|..+|+...+.|   +..++..+...|..    .++.++|+..|++..+.|   +...+..
T Consensus       223 ~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~  296 (490)
T 2xm6_A          223 LHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYY  296 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHH
Confidence            555555554    556666666666655543   33445555555555    566666666666665543   3445555


Q ss_pred             HHHHHHcC-----CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC---ChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          274 LISGLRKQ-----GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKK---RFPEAKELVGRMICERMSPSFVSYKKLI  345 (404)
Q Consensus       274 li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~~~~~~~~p~~~~~~~li  345 (404)
                      +...|...     ++.++|...|++..+.|   +...+..+...|...|   +.++|.+.|++..+.   .+...+..+.
T Consensus       297 Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~---~~~~a~~~Lg  370 (490)
T 2xm6_A          297 LAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK---GEKAAQFNLG  370 (490)
T ss_dssp             HHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT---TCHHHHHHHH
T ss_pred             HHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC---CCHHHHHHHH
Confidence            66666555     67777777777766654   3455555666665544   566777777777664   3456666666


Q ss_pred             HHHHc----CCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhcc----CCCCcchhhHHHh
Q 015590          346 HGLCN----QKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTF----GKDNRNRVYVTET  398 (404)
Q Consensus       346 ~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~~~~~~~~  398 (404)
                      ..|..    .+++++|...|++..+.|   +...+..|-..|..    .++.+.+...++.
T Consensus       371 ~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  428 (490)
T 2xm6_A          371 NALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDT  428 (490)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            66766    677777777777777654   34444444445544    4555555544443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.71  E-value=1e-13  Score=131.41  Aligned_cols=355  Identities=8%  Similarity=-0.018  Sum_probs=238.0

Q ss_pred             CCCCCccchhhcc---cCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHH-HhcCCchHHHH--
Q 015590           39 SHQDSDHHAYKLN---HKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKL-AQAKRFDAIED--  112 (404)
Q Consensus        39 ~~~~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~-~~~~~~~~a~~--  112 (404)
                      ....++.++.+.-   +.+...|...+..+.+.|++++|..+|+++++.   .|+...|...+... ...|+.+.|.+  
T Consensus        27 ~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~---~p~~~lw~~~~~~~~~~~~~~~~a~~~~  103 (530)
T 2ooe_A           27 PIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK---VLHIDLWKCYLSYVRETKGKLPSYKEKM  103 (530)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT---CCCHHHHHHHHHHHHHHTTTSTTHHHHH
T ss_pred             CHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc---CCChHHHHHHHHHHHHHccchhhHHHHH
Confidence            3444444554432   224446778888888889999999999988754   36777776666433 34567766655  


Q ss_pred             --HHHHHHhcccCCCChHHHHHHHHHHHhh---------cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHH--------
Q 015590          113 --IMQRIKVEKLCRFSDGFFYNVIKIYGNM---------AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLL--------  173 (404)
Q Consensus       113 --~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~--------  173 (404)
                        +|+.....-...+++..+|.....+...         .|++++|..+|++..+....+....|.......        
T Consensus       104 ~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~  183 (530)
T 2ooe_A          104 AQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLA  183 (530)
T ss_dssp             HHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHH
T ss_pred             HHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHH
Confidence              6665543321223344444444444332         577888888888877621111112332211100        


Q ss_pred             -----HhcCcHh------------------------------------------------------------HHHHHHHH
Q 015590          174 -----VSAKLYG------------------------------------------------------------EIQGIYTS  188 (404)
Q Consensus       174 -----~~~~~~~------------------------------------------------------------~a~~~~~~  188 (404)
                           .+.+++.                                                            ++..+|++
T Consensus       184 ~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~  263 (530)
T 2ooe_A          184 KKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQ  263 (530)
T ss_dssp             HHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHH
Confidence                 0011112                                                            34445555


Q ss_pred             HHHcCCCCCHhHHHHHHHHHHh-------cCChH-------HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHH
Q 015590          189 AAKLGVEIDACCLNILLKGLCE-------NGNLE-------AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFG  254 (404)
Q Consensus       189 ~~~~g~~~~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  254 (404)
                      ..... +.+...|..+...+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.|++++|..
T Consensus       264 al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~  342 (530)
T 2ooe_A          264 CLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHS  342 (530)
T ss_dssp             HHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHH
Confidence            55442 4456677777777775       68987       899999998863225578899999999999999999999


Q ss_pred             HHHHHHHCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHH-HHhcCChhHHHHHHHHHHH
Q 015590          255 LLERMESEGIDAD--TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYG-LLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       255 ~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~~~~  331 (404)
                      +|+++.+.  .|+  ...|..++..+.+.|+.++|..+|++..+.. +.+...|...... +...|+.++|.++|+...+
T Consensus       343 ~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~  419 (530)
T 2ooe_A          343 IYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLK  419 (530)
T ss_dssp             HHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Confidence            99999986  444  2578889998999999999999999998863 1123333332222 3468999999999999887


Q ss_pred             CCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCC-CCCC--HHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          332 ERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQG-FVPR--MGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       332 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~--~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      .. +.+...|..++..+.+.|+.++|+.+|++....+ ..|+  ...|...+......|+.+.+..+.+...+
T Consensus       420 ~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          420 KY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            52 3467899999999999999999999999999863 3443  44787778777778888888877776543

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.71  E-value=2.4e-15  Score=125.12  Aligned_cols=199  Identities=12%  Similarity=0.010  Sum_probs=134.5

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHH
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM  240 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  240 (404)
                      ++...+..+...+.+.|++++|...|+...+.. |.+...+..+...+.+.|++++|...|++..+.. +.+...|..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            455666777777777777777777777777654 4566677777777777777777777777776654 45566777777


Q ss_pred             HHHHHc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 015590          241 HGLCEK-----------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEV  309 (404)
Q Consensus       241 ~~~~~~-----------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  309 (404)
                      ..+.+.           |++++|+..|++..+.... +...|..+...+...|++++|...|++..+..  .+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            777777           8888888888887766433 56677777778888888888888888877765  567777788


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          310 LYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       310 i~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      ..++...|++++|+..+++..+.. +.+...+..+..++...|++++|...+++..
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            888888888888888888877652 3456677777788888888888888777654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.70  E-value=5.1e-13  Score=125.36  Aligned_cols=317  Identities=8%  Similarity=-0.040  Sum_probs=253.5

Q ss_pred             cCCCCCHHHHHHHHhc----CCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHh----cCCchHHHHHHHHHHhcccC
Q 015590           52 HKDWLSPTEVLKIFSN----LRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQ----AKRFDAIEDIMQRIKVEKLC  123 (404)
Q Consensus        52 ~~~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~  123 (404)
                      ..+..++..+-..|..    .+++++|+..|++..+.    -+...+..|...|..    .+++++|.++|+...+.+  
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~--  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ----GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG--  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC--
Confidence            4456666777777777    89999999999999764    367788889999998    899999999999987654  


Q ss_pred             CCChHHHHHHHHHHHhh----cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh----cCcHhHHHHHHHHHHHcCCC
Q 015590          124 RFSDGFFYNVIKIYGNM----AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS----AKLYGEIQGIYTSAAKLGVE  195 (404)
Q Consensus       124 ~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~  195 (404)
                        .....+ .+...+..    .+++++|.+.|++..+.|   +...+..+...|..    .+++++|.+.|+...+.|  
T Consensus       110 --~~~a~~-~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~--  181 (490)
T 2xm6_A          110 --LPQAQQ-NLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG--  181 (490)
T ss_dssp             --CHHHHH-HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--
T ss_pred             --CHHHHH-HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC--
Confidence              233333 34444443    579999999999988865   56678888888887    789999999999999875  


Q ss_pred             CCHhHHHHHHHHHHh----cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCC
Q 015590          196 IDACCLNILLKGLCE----NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE----KGNVEEAFGLLERMESEGIDAD  267 (404)
Q Consensus       196 ~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~  267 (404)
                       +...+..+...|..    .++.++|.++|+...+.|   +..++..+...|..    .+++++|...|++..+.|   +
T Consensus       182 -~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  254 (490)
T 2xm6_A          182 -NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---N  254 (490)
T ss_dssp             -CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---C
T ss_pred             -CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence             67788889999998    899999999999998865   56778888888886    889999999999998764   5


Q ss_pred             HHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc-----CChhHHHHHHHHHHHCCCCCCH
Q 015590          268 TVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK-----KRFPEAKELVGRMICERMSPSF  338 (404)
Q Consensus       268 ~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~~~~p~~  338 (404)
                      ...+..+...|..    .++.++|...|++..+.|   +...+..+...|...     ++.++|...+++..+.|   +.
T Consensus       255 ~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~  328 (490)
T 2xm6_A          255 SIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DA  328 (490)
T ss_dssp             HHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CH
Confidence            5677777777877    899999999999998875   566777888888887     89999999999998864   45


Q ss_pred             HHHHHHHHHHHcCC---ChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhcc----CCCCcchhhHHHh
Q 015590          339 VSYKKLIHGLCNQK---LVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTF----GKDNRNRVYVTET  398 (404)
Q Consensus       339 ~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~~~~~~~~  398 (404)
                      ..+..+...|...|   +.++|.+.|++..+.|   +...+..|-..|..    .++.+.+...++.
T Consensus       329 ~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~  392 (490)
T 2xm6_A          329 TAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRK  392 (490)
T ss_dssp             HHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            67777888887766   7899999999999774   45566666666665    4566666555544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=8.6e-15  Score=124.79  Aligned_cols=213  Identities=13%  Similarity=0.054  Sum_probs=147.9

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC--CCC----HhHHHHHHHHHHhcCCh
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV--EID----ACCLNILLKGLCENGNL  214 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~----~~~~~~li~~~~~~g~~  214 (404)
                      .|++++|...|++..+..  .+...|..+...+...|++++|...++...+...  .++    ..++..+...|...|++
T Consensus        18 ~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   95 (258)
T 3uq3_A           18 ARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDL   95 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             hccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccH
Confidence            677777777777666654  5566677777777777777777777777665421  111    46677777777777777


Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      ++|...|+...+.  .|+.       ..+.+.|++++|...++++...... +...+..+...+...|++++|...|++.
T Consensus        96 ~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~A~~~~~~a  165 (258)
T 3uq3_A           96 KKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTKSDWPNAVKAYTEM  165 (258)
T ss_dssp             HHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            7777777777664  2332       3455667777888877777765322 4456677777777888888888888877


Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       295 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      .+.. +.+...|..+...+...|++++|.+.+++..+.. +.+...|..+..++...|++++|...+++..+.
T Consensus       166 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          166 IKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            7653 2256777778888888888888888888877653 345677777888888888888888888877653

>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=99.68  E-value=2.4e-14  Score=121.76  Aligned_cols=209  Identities=11%  Similarity=-0.056  Sum_probs=157.3

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ...|..+...+...|++++|.+.++.+.+.. +.+..++..+...|...|++++|.+.|+++.+.. +.+...|..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4567777778888888888888888887764 4567778888888888888888888888877664 4567778888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      |...|++++|...|+++.+.+..| +...+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            888888888888888887633334 45567777788888888888888888877663 2246777888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHH
Q 015590          322 AKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWR  377 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  377 (404)
                      |.+.++++.+.. +.+...+..+...+...|+.++|.++++++.+.  .|+...+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~  246 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL--YPGSLEYQ  246 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTSHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH--CCCCHHHH
Confidence            888888887642 456677777788888888888888888888754  34444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.67  E-value=3.7e-14  Score=118.16  Aligned_cols=213  Identities=7%  Similarity=-0.080  Sum_probs=152.9

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +...|..+...+...|++++|.+.++.+.+.. +.+...+..+...|...|++++|...++...+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            34567777777778888888888888777664 4456677777788888888888888888776654 456677777788


Q ss_pred             HHHHc-CCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCCh
Q 015590          242 GLCEK-GNVEEAFGLLERMESEGIDAD-TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRF  319 (404)
Q Consensus       242 ~~~~~-~~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  319 (404)
                      .|... |++++|...|+++.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            88888 888888888888776322333 4567777778888888888888888877653 22466777788888888888


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHH
Q 015590          320 PEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREI  379 (404)
Q Consensus       320 ~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  379 (404)
                      ++|.+.++++.+.....+...+..+...+...|+.++|..+++.+.+.  .|+......+
T Consensus       164 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~  221 (225)
T 2vq2_A          164 GDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQTV  221 (225)
T ss_dssp             HHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            888888888776532146666777777778888888888888887643  3554444433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.67  E-value=1.7e-14  Score=122.90  Aligned_cols=157  Identities=13%  Similarity=0.024  Sum_probs=95.7

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      .+|..+...+...|++++|...++...+..  |+.       ..+.+.|++++|...++.+.... +.+...|..+...+
T Consensus        80 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~  149 (258)
T 3uq3_A           80 KSFARIGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEY  149 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHH
Confidence            455556666666666666666666665542  221       23445566666666666665543 33455566666666


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          244 CEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      ...|++++|...|++..+.... +..+|..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|.
T Consensus       150 ~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  227 (258)
T 3uq3_A          150 FTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASAL  227 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHH
Confidence            6667777777776666654322 45566666666667777777777776666553 224556666666777777777777


Q ss_pred             HHHHHHHHC
Q 015590          324 ELVGRMICE  332 (404)
Q Consensus       324 ~~~~~~~~~  332 (404)
                      +.+++..+.
T Consensus       228 ~~~~~a~~~  236 (258)
T 3uq3_A          228 ETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777666553

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=1.6e-13  Score=130.01  Aligned_cols=334  Identities=10%  Similarity=0.031  Sum_probs=229.1

Q ss_pred             CCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHH
Q 015590           53 KDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYN  132 (404)
Q Consensus        53 ~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  132 (404)
                      .|...|..++. +.+.|++++|..+|+++++.  .|.+...|...+..+.+.|++++|..+|+++....   |+.. .|.
T Consensus        11 ~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~---p~~~-lw~   83 (530)
T 2ooe_A           11 YDLDAWSILIR-EAQNQPIDKARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV---LHID-LWK   83 (530)
T ss_dssp             TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC---CCHH-HHH
T ss_pred             CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CChH-HHH
Confidence            35667888888 47789999999999999865  46678899999999999999999999999987653   3433 444


Q ss_pred             HHH-HHHhhcCCHHHHHH----HHhhccc-CCCCc-cHHHHHHHHHHHHh---------cCcHhHHHHHHHHHHHcCCCC
Q 015590          133 VIK-IYGNMAGRISKAIE----TLFDMPS-YNCWP-SVKTFNLVLNLLVS---------AKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       133 ~l~-~~~~~~g~~~~A~~----~~~~m~~-~~~~p-~~~~~~~ll~~~~~---------~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      ... ......|+.++|.+    +|++... .|..| +...|...+....+         .|+++.|..+|++..+.....
T Consensus        84 ~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~  163 (530)
T 2ooe_A           84 CYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMIN  163 (530)
T ss_dssp             HHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTT
T ss_pred             HHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhh
Confidence            333 33333577766655    7776543 34333 45678877776654         688999999999988731111


Q ss_pred             CHhHHHHHHHHH-------------HhcCChHH-----------------------------------------------
Q 015590          197 DACCLNILLKGL-------------CENGNLEA-----------------------------------------------  216 (404)
Q Consensus       197 ~~~~~~~li~~~-------------~~~g~~~~-----------------------------------------------  216 (404)
                      ....|.......             .+.++++.                                               
T Consensus       164 ~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~  243 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSN  243 (530)
T ss_dssp             HHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcC
Confidence            122332211110             01122222                                               


Q ss_pred             -------------HHHHHHHchhCCCCCcHHHHHHHHHHHHH-------cCCHH-------HHHHHHHHHHHCCCCCCHH
Q 015590          217 -------------AFYVLDEFPKQNCEPNVRTYSTLMHGLCE-------KGNVE-------EAFGLLERMESEGIDADTV  269 (404)
Q Consensus       217 -------------a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~~~~~-------~A~~~~~~m~~~~~~p~~~  269 (404)
                                   +..+|++..... +.+...|...+..+.+       .|+++       +|..+|++..+.-.+-+..
T Consensus       244 ~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~  322 (530)
T 2ooe_A          244 PLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNML  322 (530)
T ss_dssp             SSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHH
T ss_pred             CccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHH
Confidence                         333444433322 3455566666666665       68876       8899998887522223577


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC-h-hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGKGCYPN-S-ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHG  347 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~  347 (404)
                      .|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|.++|++..+.. +.+...|......
T Consensus       323 l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~  399 (530)
T 2ooe_A          323 LYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHH
Confidence            8888889999999999999999999886  444 2 478888888888899999999999998752 2233333332222


Q ss_pred             -HHcCCChHHHHHHHHHHHHCCCCC-CHHhHHHHHHhhccCCCCcchhhHHHhh
Q 015590          348 -LCNQKLVEDVDWVLKKMVQQGFVP-RMGMWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       348 -~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                       +...|+.++|..+|+...+.  .| +...|..++..+...|+.+.+..+++..
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~a  451 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERV  451 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHH
T ss_pred             HHHHcCChhHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHH
Confidence             33689999999999988864  34 4678888888888888888888877764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=9.5e-15  Score=121.49  Aligned_cols=112  Identities=15%  Similarity=0.018  Sum_probs=40.9

Q ss_pred             CcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Q 015590          177 KLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLL  256 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  256 (404)
                      |++++|+..++...+.. |.+...+..+...|...|++++|...|++..+..  .+...+..+...|...|++++|+..|
T Consensus        98 g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~  174 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQY  174 (217)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44444444444444432 2233344444444444444444444444444333  33334444444444444444444444


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHH
Q 015590          257 ERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLE  292 (404)
Q Consensus       257 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  292 (404)
                      ++..+.... +...+..+...+...|++++|...|+
T Consensus       175 ~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          175 AKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHHHHSTT-CHHHHHHHHHHHTC------------
T ss_pred             HHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            444333211 23333344444444444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.66  E-value=1.1e-15  Score=131.72  Aligned_cols=222  Identities=9%  Similarity=-0.075  Sum_probs=103.6

Q ss_pred             cCCChhHHHHHHHHHhhCCCCCC--CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCH
Q 015590           67 NLRDPISVISVLNQYSKRKDYNP--NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRI  144 (404)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  144 (404)
                      ..|++++|+..|+.+.+.....+  +..++..+...+...|++++|...++.+....   |.+...+..+...+...|++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR---PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHTTCH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC---CCcHHHHHHHHHHHHHccCH
Confidence            34677788888887765422111  34566667777777777777777777765443   22222222222222225555


Q ss_pred             HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          145 SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      ++|.+.|++..+.. +.+...|..+...+.+.|++++|...++.+.+..  |+.......+..+...|++++|...++..
T Consensus        94 ~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           94 DAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            55555555554432 1133445555555555555555555555555432  22222222333334445555555555443


Q ss_pred             hhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          225 PKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA---DTVTFNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       225 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      .... +++...+. ++..+...++.++|...+++........   +...|..+...|.+.|++++|...|++..+
T Consensus       171 ~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          171 FEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3322 22222222 3333444444444444444443221100   023344444444444444444444444443

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.65  E-value=4.1e-14  Score=120.39  Aligned_cols=201  Identities=8%  Similarity=-0.010  Sum_probs=121.5

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHH
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI  134 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  134 (404)
                      ...|..+...+...|++++|+..|+++.+..  +.+...+..+...+...|++++|.+.++.+....  +.....+..+.
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la  112 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID--PSSADAHAALAVVFQTEMEPKLADEEYRKALASD--SRNARVLNNYG  112 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCcHHHHHHHH
Confidence            3455666667777777777777777776542  3456667777777777777777777777765443  11222233333


Q ss_pred             HHHHhhcCCHHHHHHHHhhcccCCCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC
Q 015590          135 KIYGNMAGRISKAIETLFDMPSYNCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN  213 (404)
Q Consensus       135 ~~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~  213 (404)
                      ..+.. .|++++|.+.|+++...+..| +...+..+...+...|++++|.+.++.+.+.. +.+..++..+...|...|+
T Consensus       113 ~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~  190 (252)
T 2ho1_A          113 GFLYE-QKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKERE  190 (252)
T ss_dssp             HHHHH-TTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHH-HhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCC
Confidence            33333 677777777776665522223 34456666666666666666666666666553 3345566666666666666


Q ss_pred             hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          214 LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       214 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +++|...++.+.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus       191 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          191 YVPARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            666666666665543 345555666666666666666666666666554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=3e-13  Score=126.14  Aligned_cols=338  Identities=7%  Similarity=-0.084  Sum_probs=229.3

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhC-------CCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhccc-----
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKR-------KDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKL-----  122 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~-----  122 (404)
                      ...||.+-..+...|++++|++.|++.++-       ..-+....+|..+..+|...|++++|...++.+.....     
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            345788889999999999999999987641       11233567899999999999999999999988654311     


Q ss_pred             CCCC-hHHHHHHHHHHHh-hcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHH---HHhcCcHhHHHHHHHHHHHcCCCC
Q 015590          123 CRFS-DGFFYNVIKIYGN-MAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNL---LVSAKLYGEIQGIYTSAAKLGVEI  196 (404)
Q Consensus       123 ~~~~-~~~~~~~l~~~~~-~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~g~~~  196 (404)
                      ..+. ...+.+.-..+.. ..+++++|++.|++..+..  |+ +..+..+..+   +...++.++|++.+++..+.. +.
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~  207 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PD  207 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SS
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Cc
Confidence            1111 2233333222322 1467999999999988754  54 4455444444   445677889999999988875 55


Q ss_pred             CHhHHHHHHHHHHhc----CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 015590          197 DACCLNILLKGLCEN----GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFN  272 (404)
Q Consensus       197 ~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~  272 (404)
                      +..++..+...+...    |++++|.+.+++..... +.+..++..+...|...|++++|...|++..+.... +..++.
T Consensus       208 ~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~  285 (472)
T 4g1t_A          208 NQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHC  285 (472)
T ss_dssp             CHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHH
T ss_pred             chHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHH
Confidence            666776666665554    67889999999887765 667888999999999999999999999999876433 455666


Q ss_pred             HHHHHHHcC-------------------CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC
Q 015590          273 ILISGLRKQ-------------------GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER  333 (404)
Q Consensus       273 ~li~~~~~~-------------------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  333 (404)
                      .+...|...                   +..+.|...+++..+.. +.+...+..+...+...|++++|++.|++..+..
T Consensus       286 ~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~  364 (472)
T 4g1t_A          286 QIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKE  364 (472)
T ss_dssp             HHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcC
Confidence            665555322                   23567788888877653 2355788889999999999999999999998764


Q ss_pred             CCCCHH--HHHHHHH-HHHcCCChHHHHHHHHHHHHCCC----------------------CC-CHHhHHHHHHhhccCC
Q 015590          334 MSPSFV--SYKKLIH-GLCNQKLVEDVDWVLKKMVQQGF----------------------VP-RMGMWREIVGCVTFGK  387 (404)
Q Consensus       334 ~~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~----------------------~p-~~~~~~~ll~~~~~~~  387 (404)
                      ..+...  .+..+.. .....|+.++|...|++..+..-                      .| +..+|..+=..+...|
T Consensus       365 ~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g  444 (472)
T 4g1t_A          365 LTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNE  444 (472)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            332221  2233332 34578999999999988775321                      12 2345555555666666


Q ss_pred             CCcchhhHHHh
Q 015590          388 DNRNRVYVTET  398 (404)
Q Consensus       388 ~~~~~~~~~~~  398 (404)
                      +.+.+...++.
T Consensus       445 ~~~~A~~~y~k  455 (472)
T 4g1t_A          445 KMQQADEDSER  455 (472)
T ss_dssp             HCC--------
T ss_pred             CHHHHHHHHHH
Confidence            66666655543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.64  E-value=1e-13  Score=119.21  Aligned_cols=229  Identities=8%  Similarity=0.017  Sum_probs=102.2

Q ss_pred             HHHHHHHhcCCchHHHHHHHHHHhcccCCCChH-HHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc--HHHHHHHHHH
Q 015590           96 LIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDG-FFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS--VKTFNLVLNL  172 (404)
Q Consensus        96 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~ll~~  172 (404)
                      .....+...|++++|...++.+.+..   |.+. .+..+...+.. .|++++|++.|++..+.+-.|+  ...|..+...
T Consensus         8 ~~a~~~~~~~~~~~A~~~~~~~l~~~---p~~~~~~~~l~~~~~~-~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            8 RYADFLFKNNNYAEAIEVFNKLEAKK---YNSPYIYNRRAVCYYE-LAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHTT---CCCSTTHHHHHHHHHH-TTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHH-HhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            34444455555555555555544332   1121 22222222222 5555555555555444211111  1235555555


Q ss_pred             HHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHH
Q 015590          173 LVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEA  252 (404)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  252 (404)
                      +...|++++|...++...+.. +.+..++..+...|...|++++|...|++..+.. +.+...|..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            555555666655555555543 3344555555555555555555555555555442 33444444444222233355555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC---HHHHHHHHHHHhhC-CCCCC------hhhHHHHHHHHHhcCChhHH
Q 015590          253 FGLLERMESEGIDADTVTFNILISGLRKQGK---VEEGMKLLERMKGK-GCYPN------SASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       253 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~-~~~p~------~~~~~~li~~~~~~g~~~~a  322 (404)
                      ...|++..+.... +...+..+...+...|+   .++|...+++..+. .-.|+      ...|..+...|...|++++|
T Consensus       162 ~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            5555555443211 23344444444444444   44444444444332 01111      12333444444444444444


Q ss_pred             HHHHHHHHH
Q 015590          323 KELVGRMIC  331 (404)
Q Consensus       323 ~~~~~~~~~  331 (404)
                      .+.++++.+
T Consensus       241 ~~~~~~al~  249 (272)
T 3u4t_A          241 DAAWKNILA  249 (272)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            444444443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.64  E-value=8e-13  Score=113.90  Aligned_cols=210  Identities=12%  Similarity=-0.018  Sum_probs=143.9

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh----cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh----cC
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS----AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE----NG  212 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g  212 (404)
                      .|++++|.+.|++..+.+   +...+..+...+..    .+++++|...|++..+.+   +...+..+...|..    .+
T Consensus        19 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~   92 (273)
T 1ouv_A           19 EKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQ   92 (273)
T ss_dssp             TTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC
T ss_pred             CCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCccc
Confidence            566666666666665522   34556666666666    777777777777776664   55666667777777    77


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFNILISGLRK----QGKV  284 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~  284 (404)
                      ++++|...|+...+.+   +..++..+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++
T Consensus        93 ~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~  166 (273)
T 1ouv_A           93 NTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDL  166 (273)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCH
Confidence            7777777777776654   55666777777777    777777777777777654   45566666666666    7777


Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCChHH
Q 015590          285 EEGMKLLERMKGKGCYPNSASYQEVLYGLLD----KKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN----QKLVED  356 (404)
Q Consensus       285 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~  356 (404)
                      ++|...|++..+.+   +...+..+...|..    .+++++|.+.+++..+.+   +...+..+...|..    .+++++
T Consensus       167 ~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~  240 (273)
T 1ouv_A          167 KKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQ  240 (273)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTT
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHH
Confidence            77777777777664   45666667777777    777777777777777653   25566666777777    777788


Q ss_pred             HHHHHHHHHHCC
Q 015590          357 VDWVLKKMVQQG  368 (404)
Q Consensus       357 a~~~~~~m~~~~  368 (404)
                      |.+.|++..+.|
T Consensus       241 A~~~~~~a~~~~  252 (273)
T 1ouv_A          241 AIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC
Confidence            888887777554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.64  E-value=1.8e-14  Score=121.74  Aligned_cols=204  Identities=13%  Similarity=0.050  Sum_probs=121.6

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHH
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFF  130 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  130 (404)
                      ++.....|..+...+...|++++|+..|+++++..  +.+...+..+...+...|++++|...++.+....   +.+...
T Consensus        19 ~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~   93 (243)
T 2q7f_A           19 SHMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN--KEDAIPYINFANLLSSVNELERALAFYDKALELD---SSAATA   93 (243)
T ss_dssp             -----------------------CCTTHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHH
T ss_pred             chhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC---CcchHH
Confidence            44556677778888888899999999999887542  5567788888888888888888888888876553   233333


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      +..+...+...|++++|.+.|+++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...|.+
T Consensus        94 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  171 (243)
T 2q7f_A           94 YYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLAN  171 (243)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHH
Confidence            3333333333777777777777766543 2345566667777777777777777777776654 4456666667777777


Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .|++++|...|+...+.. +.+..+|..+...|.+.|++++|...|+++.+.
T Consensus       172 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          172 EGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            777777777777666553 445566666677777777777777777766654

>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=99.63  E-value=1.3e-12  Score=112.67  Aligned_cols=224  Identities=11%  Similarity=-0.033  Sum_probs=181.6

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhh----cCCHHHHHHHHhhcccCCCCccHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNM----AGRISKAIETLFDMPSYNCWPSVKT  165 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~  165 (404)
                      +..++..+...+...|++++|...|+...+.+     +...+..+...+..    .+++++|...|++..+.+   +...
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~-----~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a   76 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK-----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNG   76 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC-----CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHH
Confidence            56677778888888888888888888876532     33344444455555    788999999998887765   6678


Q ss_pred             HHHHHHHHHh----cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh----cCChHHHHHHHHHchhCCCCCcHHHHH
Q 015590          166 FNLVLNLLVS----AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE----NGNLEAAFYVLDEFPKQNCEPNVRTYS  237 (404)
Q Consensus       166 ~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  237 (404)
                      +..+...+..    .+++++|+..|+...+.+   +...+..+...|..    .+++++|...|+...+.+   +..++.
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            8888888888    899999999999988875   67788888889998    899999999999988865   566777


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHHH
Q 015590          238 TLMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQEV  309 (404)
Q Consensus       238 ~li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  309 (404)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
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    899999999999988764   56778888888888    899999999999988875   36677888


Q ss_pred             HHHHHh----cCChhHHHHHHHHHHHCC
Q 015590          310 LYGLLD----KKRFPEAKELVGRMICER  333 (404)
Q Consensus       310 i~~~~~----~g~~~~a~~~~~~~~~~~  333 (404)
                      ...|.+    .+++++|.+.+++..+.|
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    899999999999988764

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.63  E-value=3.1e-14  Score=120.24  Aligned_cols=200  Identities=15%  Similarity=0.045  Sum_probs=125.6

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ...|..+...+...|++++|...++++.+.. +.+...+..+...|...|++++|...|++..+.. +.+..++..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            3455666666677777777777777776653 4456666777777777777777777777766554 4456667777777


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      |...|++++|...|+++.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777777665322 55666777777777777777777777776652 22556677777777777777888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          323 KELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       323 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      .+.++++.+.. +.+...+..+..+|...|++++|...++++.+.
T Consensus       179 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          179 LSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            77777776652 345667777777777788888888888777753

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=2e-13  Score=113.69  Aligned_cols=188  Identities=10%  Similarity=-0.035  Sum_probs=113.4

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc-CChHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN-GNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~-g~~~~a~~  219 (404)
                      .|++++|.+.|++..+.. +.+...|..+...+...|++++|.+.++.+.+.. +.+..++..+...|... |++++|..
T Consensus        21 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~   98 (225)
T 2vq2_A           21 GQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMA   98 (225)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHH
Confidence            566666666665555432 1234456666666666666666666666666553 34555666666666666 66666666


Q ss_pred             HHHHchhCCC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          220 VLDEFPKQNC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       220 ~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      .++.+.+.+. +.+...|..+...+...|++++|...|+++.+.... +...+..+...+...|++++|...+++..+..
T Consensus        99 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  177 (225)
T 2vq2_A           99 YFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLGDADYYFKKYQSRV  177 (225)
T ss_dssp             HHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6666655211 222455666666666777777777777666654322 45566666666667777777777776666543


Q ss_pred             CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          299 CYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       299 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      ...+...+..+...+...|+.++|..+++.+.+
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          178 EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            213455566666666667777777777766654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=5.7e-14  Score=120.86  Aligned_cols=244  Identities=11%  Similarity=-0.010  Sum_probs=191.3

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC--HhHHHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID--ACCLNILLKG  207 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~  207 (404)
                      .......+.. .|++++|+..|++..+.. +.+...+..+...+...|++++|+..++...+.+..++  ...|..+...
T Consensus         6 ~~~~a~~~~~-~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            6 EFRYADFLFK-NNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             HHHHHHHHHT-TTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHH-hcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            3344445555 899999999999998765 23445888999999999999999999999998432222  2348899999


Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG  287 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  287 (404)
                      |...|++++|...|+...+.. +.+..+|..+...|...|++++|...|++..+.... +...|..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT-DPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC-cHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998865 557789999999999999999999999998876332 566777777344445699999


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHcCCChHHH
Q 015590          288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKR---FPEAKELVGRMICER-MSPS------FVSYKKLIHGLCNQKLVEDV  357 (404)
Q Consensus       288 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~-~~p~------~~~~~~li~~~~~~g~~~~a  357 (404)
                      ...|++..+.. +.+...+..+...+...|+   +++|...++++.+.. -.|+      ...|..+...|...|++++|
T Consensus       162 ~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999998873 2246777778888888888   888999999887641 1233      25778888999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHhHHHHH
Q 015590          358 DWVLKKMVQQGFVPRMGMWREIV  380 (404)
Q Consensus       358 ~~~~~~m~~~~~~p~~~~~~~ll  380 (404)
                      ...+++..+  +.|+.......+
T Consensus       241 ~~~~~~al~--~~p~~~~a~~~l  261 (272)
T 3u4t_A          241 DAAWKNILA--LDPTNKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHH--HCTTCHHHHHHH
T ss_pred             HHHHHHHHh--cCccHHHHHHHh
Confidence            999999995  446654444333

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=9e-14  Score=119.72  Aligned_cols=219  Identities=11%  Similarity=-0.040  Sum_probs=105.4

Q ss_pred             cCCHHHHHHHHhhcccCCC--C-ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHH
Q 015590          141 AGRISKAIETLFDMPSYNC--W-PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~--~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a  217 (404)
                      .|++++|+..|+++.+...  . .+..+|..+...+...|++++|...|+.+.+.. +.+..++..+...|...|++++|
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A   96 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAA   96 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHH
Confidence            3455555555555544311  0 123345555555555555555555555555543 33455555555555555555555


Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|+...+.. +.+..+|..+...|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+++....
T Consensus        97 ~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           97 YEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            55555555443 334455555555555555555555555555543  222222223333334445555555555544443


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          298 GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS--P-SFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       298 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      . .++... ..++..+...++.++|.+.+....+....  | +...+..+...|...|++++|...|++..
T Consensus       174 ~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  242 (275)
T 1xnf_A          174 S-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAV  242 (275)
T ss_dssp             S-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             C-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            1 112222 22444444455555555555554432100  0 13445555555555555555555555555

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.61  E-value=1.4e-13  Score=128.32  Aligned_cols=315  Identities=11%  Similarity=-0.036  Sum_probs=208.0

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhC-----CCC-CCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHhcccCCCC
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKR-----KDY-NPNEALYTLIINKLAQA--KRFDAIEDIMQRIKVEKLCRFS  126 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~-~p~~~~~~~li~~~~~~--~~~~~a~~~~~~~~~~~~~~~~  126 (404)
                      .++|+.+-..|...|++++|...|++..+-     ... .....++.....++...  +++++|...|++.....   |.
T Consensus        94 ~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~---p~  170 (472)
T 4g1t_A           94 LVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK---PK  170 (472)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS---TT
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC---CC
Confidence            456888889999999999999999887642     111 22356676666666554  46999999999987665   34


Q ss_pred             hHHHH-HHHHHH--HhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh----cCcHhHHHHHHHHHHHcCCCCCHh
Q 015590          127 DGFFY-NVIKIY--GNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS----AKLYGEIQGIYTSAAKLGVEIDAC  199 (404)
Q Consensus       127 ~~~~~-~~l~~~--~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~  199 (404)
                      +..++ .+...+  ....++.++|++.|++..+.+ +.+...+..+...+..    .+++++|.+.+++..... +.+..
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~  248 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTD  248 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHH
Confidence            43333 332222  223678888999998877654 2345566666555544    467889999999988875 66788


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc-------------------CCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK-------------------GNVEEAFGLLERME  260 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------------------~~~~~A~~~~~~m~  260 (404)
                      ++..+...|...|++++|...+++..+.. +.+..++..+...|...                   +..++|...|++..
T Consensus       249 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  327 (472)
T 4g1t_A          249 VLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKAD  327 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence            89999999999999999999999988765 55667777776665432                   23567888888877


Q ss_pred             HCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChh--hHHHHHH-HHHhcCChhHHHHHHHHHHHCC----
Q 015590          261 SEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSA--SYQEVLY-GLLDKKRFPEAKELVGRMICER----  333 (404)
Q Consensus       261 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~~~~~~----  333 (404)
                      +.... +..++..+...|...|++++|...|++..+....+...  .+..+.. .....|+.++|+..+.+..+..    
T Consensus       328 ~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~  406 (472)
T 4g1t_A          328 EANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSR  406 (472)
T ss_dssp             HHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCH
T ss_pred             hcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccH
Confidence            65433 55678889999999999999999999998874333221  2222222 2356789999999998876532    


Q ss_pred             -------------------CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC-CCCCCHHhH
Q 015590          334 -------------------MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ-GFVPRMGMW  376 (404)
Q Consensus       334 -------------------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~  376 (404)
                                         -+.+..+|..+..+|...|++++|.+.|++.++. ...|+..+|
T Consensus       407 ~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          407 EKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence                               1235568888999999999999999999999876 345555444

>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=99.61  E-value=2.9e-13  Score=121.85  Aligned_cols=230  Identities=9%  Similarity=0.011  Sum_probs=155.4

Q ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCC-HHHHHHHHhhcccCCCCccHHHHHHH
Q 015590           91 EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGR-ISKAIETLFDMPSYNCWPSVKTFNLV  169 (404)
Q Consensus        91 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~~~l  169 (404)
                      ...|..+...+.+.|++++|...++.+....   |.+...+..+...+...|+ +++|+..|++....+ +-+...|..+
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 RDVYDYFRAVLQRDERSERAFKLTRDAIELN---AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC---ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHH
Confidence            4566777777778888888888888876654   4444444444444444675 888888888777654 2245677777


Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH-cCC
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE-KGN  248 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-~~~  248 (404)
                      ..++...|++++|+..|+.+++.. +-+...|..+..++.+.|++++|+..|+++.+.. +.+...|+.+..++.+ .|.
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-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCc
Confidence            777888888888888888887765 5567777777788888888888888888777765 5567777777777777 555


Q ss_pred             HHHH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHcCC--CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC----
Q 015590          249 VEEA-----FGLLERMESEGIDADTVTFNILISGLRKQG--KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKK----  317 (404)
Q Consensus       249 ~~~A-----~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----  317 (404)
                      .++|     +..|++....... +...|+.+...+...|  +.++|.+.+.++ +.. ..+...+..+...|.+.|    
T Consensus       251 ~~eA~~~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~  327 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQC  327 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccc
Confidence            4666     4666666655333 4566777777777666  467777777776 321 234556666666666653    


Q ss_pred             -----ChhHHHHHHHHH
Q 015590          318 -----RFPEAKELVGRM  329 (404)
Q Consensus       318 -----~~~~a~~~~~~~  329 (404)
                           ..++|+++++++
T Consensus       328 ~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          328 DNKEDILNKALELCEIL  344 (382)
T ss_dssp             SSHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHH
Confidence                 246777777776

>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=99.60  E-value=1.7e-13  Score=123.33  Aligned_cols=247  Identities=11%  Similarity=0.009  Sum_probs=200.9

Q ss_pred             hHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCc-HhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 015590          127 DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKL-YGEIQGIYTSAAKLGVEIDACCLNILL  205 (404)
Q Consensus       127 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~li  205 (404)
                      ....+..+...+...|++++|++.|++..... +-+...|+.+..++...|+ +++|+..|+++.+.. +-+..+|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            33445555555555899999999999998855 2346789999999999996 999999999999986 66888999999


Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-CCCH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK-QGKV  284 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~  284 (404)
                      .++...|++++|...|+++.+.. +.+..+|..+..++.+.|++++|+..|+++.+.... +...|+.+...+.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcc
Confidence            99999999999999999999876 678899999999999999999999999999987655 78899999999998 6665


Q ss_pred             HHH-----HHHHHHHhhCCCCCChhhHHHHHHHHHhcC--ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC-----
Q 015590          285 EEG-----MKLLERMKGKGCYPNSASYQEVLYGLLDKK--RFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQK-----  352 (404)
Q Consensus       285 ~~a-----~~~~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g-----  352 (404)
                      ++|     +..|++..... +-+...|..+...+...|  ++++|++.+.++ +. .+.+...+..+...|.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            777     58888888763 225678888888888888  689999999988 33 3456778888999998874     


Q ss_pred             ----ChHHHHHHHHHH-HHCCCCCCHH-hHHHHHHh
Q 015590          353 ----LVEDVDWVLKKM-VQQGFVPRMG-MWREIVGC  382 (404)
Q Consensus       353 ----~~~~a~~~~~~m-~~~~~~p~~~-~~~~ll~~  382 (404)
                          ..++|.++++++ .  .+.|... .|..+...
T Consensus       329 ~~~~~~~~A~~~~~~l~~--~~DP~r~~~w~~~~~~  362 (382)
T 2h6f_A          329 NKEDILNKALELCEILAK--EKDTIRKEYWRYIGRS  362 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHH--TTCGGGHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHH--HhCchhHHHHHHHHHH
Confidence                258999999998 5  4566554 44444443

>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=99.57  E-value=6.8e-12  Score=125.29  Aligned_cols=278  Identities=14%  Similarity=0.161  Sum_probs=206.5

Q ss_pred             CCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHH
Q 015590           55 WLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVI  134 (404)
Q Consensus        55 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l  134 (404)
                      ......+-..+...|.+++|..+|++..      -.....+.++.   ..+++++|.++.+++.       .+.+++.+-
T Consensus      1049 ~~d~~eIA~Iai~lglyEEAf~IYkKa~------~~~~A~~VLie---~i~nldrAiE~Aervn-------~p~vWsqLA 1112 (1630)
T 1xi4_A         1049 NYDAPDIANIAISNELFEEAFAIFRKFD------VNTSAVQVLIE---HIGNLDRAYEFAERCN-------EPAVWSQLA 1112 (1630)
T ss_pred             hccHHHHHHHHHhCCCHHHHHHHHHHcC------CHHHHHHHHHH---HHhhHHHHHHHHHhcC-------CHHHHHHHH
Confidence            3345556677888889999999998862      12222333332   7778888888888652       244455555


Q ss_pred             HHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCCh
Q 015590          135 KIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNL  214 (404)
Q Consensus       135 ~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~  214 (404)
                      .++.. .|++++|.+.|.+.      -|...|..++..+.+.|++++|.+.+...++..  +++...+.++.+|++.+++
T Consensus      1113 KAql~-~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rl 1183 (1630)
T 1xi4_A         1113 KAQLQ-KGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRL 1183 (1630)
T ss_pred             HHHHh-CCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCH
Confidence            55555 89999999999764      356788889999999999999999998877764  4444455689999999888


Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      ++.....    +   .++...|..+...|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++.
T Consensus      1184 eele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA 1247 (1630)
T 1xi4_A         1184 AELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA 1247 (1630)
T ss_pred             HHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh
Confidence            8644442    2   456677778999999999999999999884         37899999999999999999999877


Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH-
Q 015590          295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM-  373 (404)
Q Consensus       295 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-  373 (404)
                      .      +..+|..+-.+|...|++..|......+     ..+...+..++..|.+.|.+++|..+++...  |+.|.. 
T Consensus      1248 ~------n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL--~LeraH~ 1314 (1630)
T 1xi4_A         1248 N------STRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAAL--GLERAHM 1314 (1630)
T ss_pred             C------CHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHh--ccChhHh
Confidence            3      5688888888888888888888876643     3456667788899999999999999998777  444433 


Q ss_pred             HhHHHHHHhhccC
Q 015590          374 GMWREIVGCVTFG  386 (404)
Q Consensus       374 ~~~~~ll~~~~~~  386 (404)
                      ..|+.|-..+.+.
T Consensus      1315 gmftELaiLyaKy 1327 (1630)
T 1xi4_A         1315 GMFTELAILYSKF 1327 (1630)
T ss_pred             HHHHHHHHHHHhC
Confidence            3455554455443

>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=99.55  E-value=1.6e-11  Score=122.78  Aligned_cols=289  Identities=12%  Similarity=0.131  Sum_probs=165.9

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHhhCCC-CCCCHHHHHHHHHH---------------------------HHhcCCchHH
Q 015590           59 TEVLKIFSNLRDPISVISVLNQYSKRKD-YNPNEALYTLIINK---------------------------LAQAKRFDAI  110 (404)
Q Consensus        59 ~~li~~~~~~~~~~~a~~~~~~~~~~~~-~~p~~~~~~~li~~---------------------------~~~~~~~~~a  110 (404)
                      ....++|...|.+.+|++++++...... +.-+...-+.++.+                           +...|.+++|
T Consensus       989 s~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d~~eIA~Iai~lglyEEA 1068 (1630)
T 1xi4_A          989 SVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIANIAISNELFEEA 1068 (1630)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhccHHHHHHHHHhCCCHHHH
Confidence            4566788899999999999999974322 11223333334433                           3344455555


Q ss_pred             HHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHH
Q 015590          111 EDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAA  190 (404)
Q Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  190 (404)
                      ..+|++...          ....+..+....+++++|.++.++..      +..+|..+..++.+.|++++|++.|... 
T Consensus      1069 f~IYkKa~~----------~~~A~~VLie~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G~~kEAIdsYiKA- 1131 (1630)
T 1xi4_A         1069 FAIFRKFDV----------NTSAVQVLIEHIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA- 1131 (1630)
T ss_pred             HHHHHHcCC----------HHHHHHHHHHHHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCCCHHHHHHHHHhc-
Confidence            555554310          11112222222455555555555432      2445666666666666666666666432 


Q ss_pred             HcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 015590          191 KLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVT  270 (404)
Q Consensus       191 ~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~  270 (404)
                           -|...|..++.+|.+.|++++|.+.+....+..  ++....+.++.+|++.+++++.....    .   .++...
T Consensus      1132 -----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad 1197 (1630)
T 1xi4_A         1132 -----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAH 1197 (1630)
T ss_pred             -----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHH
Confidence                 345555666666666666666666666555442  22222334666666666665432221    1   234455


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          271 FNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN  350 (404)
Q Consensus       271 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  350 (404)
                      |..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.      .+..+|..+-.+|..
T Consensus      1198 ~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve 1262 (1630)
T 1xi4_A         1198 IQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVD 1262 (1630)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhh
Confidence            555666666666666666666653         25666666666666666666666655      234666666666666


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHh
Q 015590          351 QKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTET  398 (404)
Q Consensus       351 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~  398 (404)
                      .|+++.|....-.     +..++..+..++..|...|.++++..++|.
T Consensus      1263 ~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~ 1305 (1630)
T 1xi4_A         1263 GKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEA 1305 (1630)
T ss_pred             hhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666654432     334555666788888888888777777654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=2.7e-13  Score=124.03  Aligned_cols=227  Identities=15%  Similarity=-0.014  Sum_probs=136.8

Q ss_pred             cCCHHHHHHHHhhcccC----CC-CccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc----C-CCCCHhHHHHHHHHHHh
Q 015590          141 AGRISKAIETLFDMPSY----NC-WPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL----G-VEIDACCLNILLKGLCE  210 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~----~~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~li~~~~~  210 (404)
                      .|++++|...|++..+.    +- +.....+..+...+...|++++|...+++..+.    + .+....++..+...|..
T Consensus        99 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  178 (411)
T 4a1s_A           99 LGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHA  178 (411)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHH
Confidence            55555555555544321    10 112345555666666666666666666655443    1 11223455666666666


Q ss_pred             cCC-----------------hHHHHHHHHHchhC----CC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC
Q 015590          211 NGN-----------------LEAAFYVLDEFPKQ----NC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-AD  267 (404)
Q Consensus       211 ~g~-----------------~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~  267 (404)
                      .|+                 +++|...+++..+.    +- +....++..+...|...|++++|...|++..+.... ++
T Consensus       179 ~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  258 (411)
T 4a1s_A          179 KGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGD  258 (411)
T ss_dssp             HHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCC
Confidence            666                 66666666654321    10 112346667777777788888887777776543110 01


Q ss_pred             ----HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC--CC---CChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CC
Q 015590          268 ----TVTFNILISGLRKQGKVEEGMKLLERMKGKG--CY---PNSASYQEVLYGLLDKKRFPEAKELVGRMICE----RM  334 (404)
Q Consensus       268 ----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~---p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~  334 (404)
                          ..++..+...|...|++++|...+++..+..  ..   ....++..+...+...|++++|.+.+++..+.    +.
T Consensus       259 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  338 (411)
T 4a1s_A          259 RAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGD  338 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             cHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCC
Confidence                2366777777888888888888887765531  00   11456677777888888888888888877653    11


Q ss_pred             C-CCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          335 S-PSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       335 ~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      . ....++..+...|...|++++|...+++..+.
T Consensus       339 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          339 RIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            1 11346677778888888888888888887753

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.54  E-value=9.3e-14  Score=126.68  Aligned_cols=298  Identities=10%  Similarity=-0.037  Sum_probs=200.3

Q ss_pred             CHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCC--HHHHHHHHHHHHhcCCchHHHHHHHHHHhccc---CCCChHHHH
Q 015590           57 SPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPN--EALYTLIINKLAQAKRFDAIEDIMQRIKVEKL---CRFSDGFFY  131 (404)
Q Consensus        57 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~  131 (404)
                      .+...-..+...|++++|+..|+++++..+-.|.  ...+..+...+...|++++|...++.+.....   ..+.....+
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   90 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   90 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHH
Confidence            3455567888899999999999999875321111  35688888899999999999999988643310   111223333


Q ss_pred             HHHHHHHhhcCCHHHHHHHHhhcccCC----CCc-cHHHHHHHHHHHHhcCc--------------------HhHHHHHH
Q 015590          132 NVIKIYGNMAGRISKAIETLFDMPSYN----CWP-SVKTFNLVLNLLVSAKL--------------------YGEIQGIY  186 (404)
Q Consensus       132 ~~l~~~~~~~g~~~~A~~~~~~m~~~~----~~p-~~~~~~~ll~~~~~~~~--------------------~~~a~~~~  186 (404)
                      ..+...+...|++++|...|++..+..    -.+ ...++..+...+...|+                    +++|...+
T Consensus        91 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  170 (406)
T 3sf4_A           91 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFY  170 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            344444444899999999888775521    001 13477788888888999                    88888888


Q ss_pred             HHHHHc----CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCC-CcHHHHHHHHHHHHHcCCHHHHHHHH
Q 015590          187 TSAAKL----GV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCE-PNVRTYSTLMHGLCEKGNVEEAFGLL  256 (404)
Q Consensus       187 ~~~~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~A~~~~  256 (404)
                      +...+.    +. +....++..+...|...|++++|...+++..+.    +.. ....++..+...|...|++++|...+
T Consensus       171 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  250 (406)
T 3sf4_A          171 EENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYY  250 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            876543    11 112446778888888899999999888877542    100 11236778888888999999999888


Q ss_pred             HHHHHC----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHH
Q 015590          257 ERMESE----GIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYP-NSASYQEVLYGLLDKKRFPEAKELV  326 (404)
Q Consensus       257 ~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~  326 (404)
                      ++....    +..+ ...++..+...|...|++++|...+++..+.    +..+ ...++..+...|...|++++|.+.+
T Consensus       251 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  330 (406)
T 3sf4_A          251 KKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFA  330 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            877542    1111 1456777888888889999998888877653    1111 1456777788888888998888888


Q ss_pred             HHHHHC----CCCC-CHHHHHHHHHHHHcCCCh
Q 015590          327 GRMICE----RMSP-SFVSYKKLIHGLCNQKLV  354 (404)
Q Consensus       327 ~~~~~~----~~~p-~~~~~~~li~~~~~~g~~  354 (404)
                      ++..+.    +..+ ...++..+...+...|+.
T Consensus       331 ~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          331 EKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            876643    1111 234555666666666654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.53  E-value=8.1e-12  Score=109.65  Aligned_cols=183  Identities=13%  Similarity=0.024  Sum_probs=95.7

Q ss_pred             HHHHHHHhhccc-CCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC-Hh-HHHHHHHHHHhcCChHHHHHHH
Q 015590          145 SKAIETLFDMPS-YNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID-AC-CLNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       145 ~~A~~~~~~m~~-~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~-~~~~li~~~~~~g~~~~a~~~~  221 (404)
                      ++|..+|++... .. +-+...|..++..+.+.|++++|.++|+++.+.  .|+ .. +|..+...+.+.|++++|..+|
T Consensus        81 ~~A~~~~~rAl~~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  157 (308)
T 2ond_A           81 DEAANIYERAISTLL-KKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTTT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHH
Confidence            555555555544 22 112335555555555555555666555555543  222 22 5555555555566666666666


Q ss_pred             HHchhCCCCCcHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC-C
Q 015590          222 DEFPKQNCEPNVRTYSTLMHGLC-EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG-C  299 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~~~-~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~  299 (404)
                      ++..+.+ +.+...|........ ..|+.++|..+|++..+.... +...|..++..+.+.|+.++|..+|++..... .
T Consensus       158 ~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l  235 (308)
T 2ond_A          158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCC
Confidence            6555543 233333333222211 246666666666665544222 44555666666666666666666666666542 2


Q ss_pred             CC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          300 YP--NSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       300 ~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      .|  ....|..++....+.|+.++|..+++++.+.
T Consensus       236 ~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33  2345555566666666666666666666543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.53  E-value=3.8e-13  Score=123.07  Aligned_cols=273  Identities=11%  Similarity=-0.004  Sum_probs=203.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCH----HHHHHHHHHHHhcCCchHHHHHHHHHHhccc---CCCChHHH
Q 015590           58 PTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNE----ALYTLIINKLAQAKRFDAIEDIMQRIKVEKL---CRFSDGFF  130 (404)
Q Consensus        58 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~  130 (404)
                      +..+-..+...|++++|+..|+++++..  +.+.    ..+..+...+...|++++|...+++......   ..+.....
T Consensus        51 l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           51 LALEGERLCNAGDCRAGVAFFQAAIQAG--TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCcHHHHHHHHHHHHHhc--ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            3445567889999999999999998753  2233    5788899999999999999999998754310   11222334


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccC----CCCc-cHHHHHHHHHHHHhcCc-----------------HhHHHHHHHH
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSY----NCWP-SVKTFNLVLNLLVSAKL-----------------YGEIQGIYTS  188 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~  188 (404)
                      +..+...+...|++++|...|++..+.    +-.| ...++..+...+...|+                 +++|.+.+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            444444444599999999999987652    1112 23578888999999999                 9999999988


Q ss_pred             HHHc----CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC---C--CcHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          189 AAKL----GV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC---E--PNVRTYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       189 ~~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~--~~~~~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      ..+.    +- +....++..+...|...|++++|...+++..+...   .  ....++..+...|...|++++|...|++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKR  288 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            7643    21 12345788899999999999999999998765310   1  1123788899999999999999999998


Q ss_pred             HHHCCCC-----CCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CC-CCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          259 MESEGID-----ADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GC-YPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       259 m~~~~~~-----p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                      .......     ....++..+...|...|++++|...+++....    +. .....++..+...|...|++++|.+.+++
T Consensus       289 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  368 (411)
T 4a1s_A          289 TLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQ  368 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            7653111     12467888899999999999999999988754    11 11135778888999999999999999999


Q ss_pred             HHHC
Q 015590          329 MICE  332 (404)
Q Consensus       329 ~~~~  332 (404)
                      ..+.
T Consensus       369 al~~  372 (411)
T 4a1s_A          369 HLQL  372 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.52  E-value=1.9e-11  Score=107.34  Aligned_cols=184  Identities=10%  Similarity=-0.010  Sum_probs=108.4

Q ss_pred             hHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHH
Q 015590          180 GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVR-TYSTLMHGLCEKGNVEEAFGLLER  258 (404)
Q Consensus       180 ~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~  258 (404)
                      ++|..+|++..+.-.+.+...|..++..+.+.|++++|..+|++..+.. +.+.. .|..+...+.+.|++++|..+|++
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  159 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            6667777666652113344566666666666777777777777666542 11222 566666666666777777777766


Q ss_pred             HHHCCCCCCHHHHHHHHHHHH-cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCC
Q 015590          259 MESEGIDADTVTFNILISGLR-KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER-MSP  336 (404)
Q Consensus       259 m~~~~~~p~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p  336 (404)
                      ..+... ++...|........ ..|+.++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++..... +.|
T Consensus       160 a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p  237 (308)
T 2ond_A          160 AREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHhcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCH
Confidence            665432 23333433322221 2566777777776666542 1145566666666666677777777777666642 233


Q ss_pred             --CHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          337 --SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       337 --~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                        ....|..++....+.|+.++|..+++++.+
T Consensus       238 ~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          238 EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              345666666666666777777777666664

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.51  E-value=5.1e-12  Score=101.86  Aligned_cols=165  Identities=13%  Similarity=0.031  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      +..|..+...+.+.|++++|++.|++..+.. |-+..++..+..+|.+.|++++|...+....... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            3444555555555555555555555554443 3344444445555555555555555554444332 2333444444444


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      +...++++.|...+.+....... +...+..+...|.+.|++++|++.|++..+.. +-+...|..+..+|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            44445555555544444433221 33344444444444444444444444444332 11233444444444444444444


Q ss_pred             HHHHHHHHH
Q 015590          323 KELVGRMIC  331 (404)
Q Consensus       323 ~~~~~~~~~  331 (404)
                      ++.|++..+
T Consensus       161 ~~~~~~al~  169 (184)
T 3vtx_A          161 VKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            444444443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.51  E-value=3.1e-12  Score=103.11  Aligned_cols=175  Identities=13%  Similarity=0.080  Sum_probs=151.7

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          196 IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       196 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                      .+..+|..+...|.+.|++++|...|++..+.. |.+..+|..+...|.+.|++++|...+......... +...+..+.
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~   80 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILG   80 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHH
Confidence            367789999999999999999999999998876 668889999999999999999999999999877544 667788888


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChH
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVE  355 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  355 (404)
                      ..+...++++.+...+.+..... +-+...+..+...+.+.|++++|++.|++..+.. +.+...|..+..+|.+.|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHH
Confidence            88999999999999999988764 2367788999999999999999999999998863 457788999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHhH
Q 015590          356 DVDWVLKKMVQQGFVPRMGMW  376 (404)
Q Consensus       356 ~a~~~~~~m~~~~~~p~~~~~  376 (404)
                      +|.+.|++.++  +.|+...|
T Consensus       159 ~A~~~~~~al~--~~p~~a~~  177 (184)
T 3vtx_A          159 EAVKYFKKALE--KEEKKAKY  177 (184)
T ss_dssp             HHHHHHHHHHH--TTHHHHHH
T ss_pred             HHHHHHHHHHh--CCccCHHH
Confidence            99999999985  45654433

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.51  E-value=7.8e-13  Score=120.52  Aligned_cols=298  Identities=12%  Similarity=-0.050  Sum_probs=215.8

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh----HHHHHHHHHHHhhcCCHHHHHHHHhhcccC----CC
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD----GFFYNVIKIYGNMAGRISKAIETLFDMPSY----NC  159 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~  159 (404)
                      .+....+......+...|++++|...++.+....   +.+    ...+..+...+...|++++|...|++....    +-
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~   82 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG---TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGD   82 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC---cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccc
Confidence            4566677888889999999999999999987764   222    123333443444499999999999886442    21


Q ss_pred             Ccc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-----CCCHhHHHHHHHHHHhcCC--------------------
Q 015590          160 WPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-----EIDACCLNILLKGLCENGN--------------------  213 (404)
Q Consensus       160 ~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~~~~~~~~~li~~~~~~g~--------------------  213 (404)
                      .|. ..++..+...+...|++++|...+++..+...     .....++..+...|...|+                    
T Consensus        83 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~  162 (406)
T 3sf4_A           83 QLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDA  162 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHH
Confidence            222 45788888999999999999999998875421     1114478889999999999                    


Q ss_pred             hHHHHHHHHHchhC----CC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHcCCC
Q 015590          214 LEAAFYVLDEFPKQ----NC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI-DAD----TVTFNILISGLRKQGK  283 (404)
Q Consensus       214 ~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~  283 (404)
                      +++|...+++..+.    +. +....++..+...|...|++++|...|++..+... .++    ..++..+...|...|+
T Consensus       163 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  242 (406)
T 3sf4_A          163 LQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  242 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999998876532    11 12245788889999999999999999998764311 112    2378888999999999


Q ss_pred             HHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHcCCC
Q 015590          284 VEEGMKLLERMKGK----GCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICERM-SPS----FVSYKKLIHGLCNQKL  353 (404)
Q Consensus       284 ~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~----~~~~~~li~~~~~~g~  353 (404)
                      +++|...+++..+.    +..+ ...++..+...+...|++++|.+.+++..+... .++    ..++..+...|...|+
T Consensus       243 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  322 (406)
T 3sf4_A          243 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGN  322 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            99999999987654    1111 145778889999999999999999998875311 112    4577888899999999


Q ss_pred             hHHHHHHHHHHHHC----CCCCC-HHhHHHHHHhhccCCC
Q 015590          354 VEDVDWVLKKMVQQ----GFVPR-MGMWREIVGCVTFGKD  388 (404)
Q Consensus       354 ~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~  388 (404)
                      +++|...+++..+.    +..+. ..++..+-..+...|+
T Consensus       323 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~  362 (406)
T 3sf4_A          323 HDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGL  362 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhH
Confidence            99999999987753    22222 2345555555554443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.50  E-value=8.2e-13  Score=116.82  Aligned_cols=274  Identities=9%  Similarity=-0.029  Sum_probs=136.4

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCC----HHHHHHHHHHHHhcCCchHHHHHHHHHHhccc---CCCChHHHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPN----EALYTLIINKLAQAKRFDAIEDIMQRIKVEKL---CRFSDGFFYN  132 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~~  132 (404)
                      ..-..+...|++++|+..|+++++..  +.+    ...+..+...+...|++++|.+.++.......   ..+.....+.
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            34456777788888888888887653  223    35677777888888888888888877543210   0111122233


Q ss_pred             HHHHHHhhcCCHHHHHHHHhhcccC----CCCc-cHHHHHHHHHHHHhcCc--------------------HhHHHHHHH
Q 015590          133 VIKIYGNMAGRISKAIETLFDMPSY----NCWP-SVKTFNLVLNLLVSAKL--------------------YGEIQGIYT  187 (404)
Q Consensus       133 ~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~  187 (404)
                      .+...+...|++++|...|++..+.    +-.+ ...++..+...+...|+                    +++|.+.++
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~  167 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYE  167 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHH
Confidence            3333333367777777777665431    1000 12255556666666666                    666666555


Q ss_pred             HHHHc----CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          188 SAAKL----GV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       188 ~~~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +..+.    +. +....++..+...|...|++++|...+++..+..                               ...
T Consensus       168 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-------------------------------~~~  216 (338)
T 3ro2_A          168 ENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA-------------------------------KEF  216 (338)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-------------------------------HHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-------------------------------Hhc
Confidence            54321    10 0112234444444555555555555554433210                               000


Q ss_pred             CC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----
Q 015590          263 GI-DADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICE----  332 (404)
Q Consensus       263 ~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----  332 (404)
                      +. .....++..+...+...|++++|...+++..+.    +..+ ...++..+...+...|++++|.+.+++..+.    
T Consensus       217 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~  296 (338)
T 3ro2_A          217 GDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQEL  296 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhc
Confidence            00 001123444444445555555555555444322    0000 0234455555555566666666655555432    


Q ss_pred             CCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          333 RMSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       333 ~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      +..+ ...++..+...|...|++++|...+++..+
T Consensus       297 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          297 KDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            1000 123455556666666666666666666554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.50  E-value=1.5e-12  Score=115.12  Aligned_cols=238  Identities=15%  Similarity=-0.005  Sum_probs=147.4

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHc----CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CC-CCcHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKL----GV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NC-EPNVR  234 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~  234 (404)
                      .+..+...+...|++++|.+.++...+.    +. +....++..+...|...|++++|...+++..+.    +- .....
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            3444444555555555555555443322    11 112334455555555556666555555554321    10 00123


Q ss_pred             HHHHHHHHHHHcCC--------------------HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHcCCCHHHHHH
Q 015590          235 TYSTLMHGLCEKGN--------------------VEEAFGLLERMESE----GIDA-DTVTFNILISGLRKQGKVEEGMK  289 (404)
Q Consensus       235 ~~~~li~~~~~~~~--------------------~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~  289 (404)
                      ++..+...|...|+                    +++|...+++....    +..+ ....+..+...+...|++++|..
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            55556666666666                    66676666654321    1111 23467777788888888888888


Q ss_pred             HHHHHhhC----CC-CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHcCCChHHHHH
Q 015590          290 LLERMKGK----GC-YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERM-SPS----FVSYKKLIHGLCNQKLVEDVDW  359 (404)
Q Consensus       290 ~~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~p~----~~~~~~li~~~~~~g~~~~a~~  359 (404)
                      .+++..+.    +. .....++..+...+...|++++|.+.+++..+... .++    ..++..+...+...|++++|..
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            88877643    10 11134788888999999999999999998875310 112    4577888899999999999999


Q ss_pred             HHHHHHHC----CCCCC-HHhHHHHHHhhccCCCCcchhhHHHhhhhh
Q 015590          360 VLKKMVQQ----GFVPR-MGMWREIVGCVTFGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       360 ~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~~~~~~~~~~~~  402 (404)
                      .+++..+.    +-.+. ..++..+-..+...|+.+.+...++..-++
T Consensus       285 ~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          285 YHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            99988753    21111 336777778888999999998888776554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.49  E-value=2.2e-12  Score=117.00  Aligned_cols=297  Identities=11%  Similarity=0.014  Sum_probs=204.5

Q ss_pred             HhcCCChhHHHHHHHHHhhCCC-CCCCH--HHHHHHHHHH--HhcCCchHHH-----------HHHHHHHhcccCCCChH
Q 015590           65 FSNLRDPISVISVLNQYSKRKD-YNPNE--ALYTLIINKL--AQAKRFDAIE-----------DIMQRIKVEKLCRFSDG  128 (404)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~-~~p~~--~~~~~li~~~--~~~~~~~~a~-----------~~~~~~~~~~~~~~~~~  128 (404)
                      +.+.++.++|..+++.+.+..+ ...|.  ..|..++..-  .-.++++.+.           +.++.+....  .+.+.
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            4457899999999999865422 22343  3334443321  1223344444           6666654322  01111


Q ss_pred             ----HHHHHHHHHHhhcCCHHHHHHHHhhcccC----CCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-----
Q 015590          129 ----FFYNVIKIYGNMAGRISKAIETLFDMPSY----NCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-----  194 (404)
Q Consensus       129 ----~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----  194 (404)
                          .++.....++...|++++|...|++..+.    +-.+ ...+|..+...+...|++++|...+++..+.--     
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                11222334444489999999999987653    2112 235788899999999999999999998876411     


Q ss_pred             -CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC
Q 015590          195 -EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCE-PNVRTYSTLMHGLCEKGNVEEAFGLLERMESE----GI  264 (404)
Q Consensus       195 -~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----~~  264 (404)
                       +....+++.+...|...|++++|...|++..+.    +-. ....++..+...|...|++++|...|++..+.    +.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence             112457888999999999999999999887643    101 11247888999999999999999999998762    22


Q ss_pred             -CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCC
Q 015590          265 -DADTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYPNSASYQEVLYGLLDKKR---FPEAKELVGRMICERMSP  336 (404)
Q Consensus       265 -~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p  336 (404)
                       +....++..+...|.+.|++++|...+++..+.    +-......+..+...+...|+   +++|+.++++.   +..|
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~  336 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYA  336 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHH
Confidence             334567888999999999999999999987654    111122335667777888888   77777777766   2333


Q ss_pred             C-HHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          337 S-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       337 ~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      + ...+..+...|...|++++|...+++..+
T Consensus       337 ~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3 34677788999999999999999998875

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.49  E-value=1.5e-12  Score=121.44  Aligned_cols=184  Identities=10%  Similarity=-0.048  Sum_probs=104.0

Q ss_pred             cCCH-HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc--------
Q 015590          141 AGRI-SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN--------  211 (404)
Q Consensus       141 ~g~~-~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~--------  211 (404)
                      .|++ ++|++.|++..+.. +.+...|..+...+.+.|++++|.+.|+...+..  |+...+..+...|...        
T Consensus       115 ~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~  191 (474)
T 4abn_A          115 TPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHC--KNKVSLQNLSMVLRQLQTDSGDEH  191 (474)
T ss_dssp             SSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC--CCHHHHHHHHHHHTTCCCSCHHHH
T ss_pred             ccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCHHHHHHHHHHHHHhccCChhhh
Confidence            5566 66666666555433 1224455666666666666666666666665542  4455555566666665        


Q ss_pred             -CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHc
Q 015590          212 -GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK--------GNVEEAFGLLERMESEGID--ADTVTFNILISGLRK  280 (404)
Q Consensus       212 -g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------~~~~~A~~~~~~m~~~~~~--p~~~~~~~li~~~~~  280 (404)
                       |++++|...|++..+.. +.+...|..+..+|...        |++++|+..|++..+....  -+...|..+...|..
T Consensus       192 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~  270 (474)
T 4abn_A          192 SRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKY  270 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHH
Confidence             66666666666655543 34455566666666655        6666666666666554210  145556666666666


Q ss_pred             CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          281 QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       281 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      .|++++|.+.|++..+.. +-+...+..+...+...|++++|++.+.++
T Consensus       271 ~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          271 EESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            666666666666665542 113445555666666666666666555443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.48  E-value=1.6e-12  Score=121.21  Aligned_cols=216  Identities=12%  Similarity=-0.021  Sum_probs=184.4

Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcH-hHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLY-GEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      +.++++++.+++..... +.+...|..+...+...|++ ++|++.|++..+.. +.+..+|..+...|.+.|++++|...
T Consensus        82 ~~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  159 (474)
T 4abn_A           82 EEMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTC  159 (474)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            44677777887766543 24677899999999999999 99999999999875 55688999999999999999999999


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC--------CC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEK---------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ--------GK  283 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~---------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------g~  283 (404)
                      |+...+.  .|+...+..+...|...         |++++|+..|++..+.... +...|..+...|...        |+
T Consensus       160 ~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          160 FSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccch
Confidence            9999887  46778999999999999         9999999999999887543 678899999999988        99


Q ss_pred             HHHHHHHHHHHhhCCCC--CChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHH
Q 015590          284 VEEGMKLLERMKGKGCY--PNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVL  361 (404)
Q Consensus       284 ~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  361 (404)
                      +++|...|++..+....  -+...|..+..+|...|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999986310  377899999999999999999999999998763 345677888889999999999998765


Q ss_pred             HH
Q 015590          362 KK  363 (404)
Q Consensus       362 ~~  363 (404)
                      .+
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            44

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.44  E-value=6e-12  Score=110.16  Aligned_cols=238  Identities=15%  Similarity=0.025  Sum_probs=160.1

Q ss_pred             HHHHHHHHHHHhhcCCHHHHHHHHhhcccC-------CCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc------CC
Q 015590          128 GFFYNVIKIYGNMAGRISKAIETLFDMPSY-------NCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL------GV  194 (404)
Q Consensus       128 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~-------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~  194 (404)
                      ...+..+...+...|++++|..+|+++.+.       ..+.....+..+...+...|++++|...+++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            333444444444489999999999988762       22234567888889999999999999999988764      21


Q ss_pred             -CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC------CC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 015590          195 -EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ------NC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE----  262 (404)
Q Consensus       195 -~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----  262 (404)
                       +....++..+...|...|++++|...|++..+.      +- +....++..+...|...|++++|...|++..+.    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence             334567888889999999999999999987653      21 234556888888999999999999999988654    


Q ss_pred             --CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC-------CCCCChh-------hHHHHHHHHHhcCChhHHHHH
Q 015590          263 --GIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGK-------GCYPNSA-------SYQEVLYGLLDKKRFPEAKEL  325 (404)
Q Consensus       263 --~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~p~~~-------~~~~li~~~~~~g~~~~a~~~  325 (404)
                        +..| ...++..+...|...|++++|...++++.+.       ...+...       .+..+...+...+.+.++...
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~  266 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGW  266 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC--
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence              2122 3456788888999999999999999988753       1112211       122223333445666677777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          326 VGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       326 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      +...... .+.+..++..+..+|...|++++|.+++++..+
T Consensus       267 ~~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          267 YKACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HhhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7766543 133456788888999999999999999998874

>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=1.6e-12  Score=113.83  Aligned_cols=190  Identities=15%  Similarity=0.060  Sum_probs=104.9

Q ss_pred             cCCHHHHHHHHhhcccC------CCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc------CC-CCCHhHHHHHHH
Q 015590          141 AGRISKAIETLFDMPSY------NCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL------GV-EIDACCLNILLK  206 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~li~  206 (404)
                      .|++++|...|++....      +-.| ...++..+...+...|++++|...++++.+.      +- +....++..+..
T Consensus        82 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~  161 (311)
T 3nf1_A           82 QNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLAL  161 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            55555555555554331      1112 2345666667777777777777777766653      11 223445666777


Q ss_pred             HHHhcCChHHHHHHHHHchhC------C-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-------CCCCCH----
Q 015590          207 GLCENGNLEAAFYVLDEFPKQ------N-CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE-------GIDADT----  268 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-------~~~p~~----  268 (404)
                      .|...|++++|...|++..+.      + .+....++..+...|...|++++|...|+++.+.       ...+..    
T Consensus       162 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  241 (311)
T 3nf1_A          162 LCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIW  241 (311)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHH
Confidence            777777777777777776543      1 1223456777777788888888888888777642       111111    


Q ss_pred             ---HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          269 ---VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       269 ---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                         ..+..+...+...+.+.++...++...... ..+..++..+...|.+.|++++|.+++++..+
T Consensus       242 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          242 MHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence               112222233333444555555666555431 22456778888888889999999999888765

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.40  E-value=6.2e-11  Score=95.06  Aligned_cols=163  Identities=15%  Similarity=0.048  Sum_probs=103.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      .+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+... .+...+..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~   87 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHH
Confidence            44555556666666666666666665543 34555666666666666666666666666655422 24555666666666


Q ss_pred             cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHH
Q 015590          280 KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDW  359 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  359 (404)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            6677777777766666542 2245566666667777777777777777766552 3455666777777777777777777


Q ss_pred             HHHHHHH
Q 015590          360 VLKKMVQ  366 (404)
Q Consensus       360 ~~~~m~~  366 (404)
                      .+++..+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777664

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.40  E-value=9.7e-11  Score=93.89  Aligned_cols=153  Identities=14%  Similarity=0.047  Sum_probs=106.0

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...|...|++++|...
T Consensus        21 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~   98 (186)
T 3as5_A           21 AGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPL   98 (186)
T ss_dssp             HTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHH
Confidence            778888888888777653 2355667777777777788888888877777664 44566777777777777777777777


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ++.+.+.. +.+...+..+...+...|++++|...+++..+.... +...+..+...+...|++++|...+++..+.
T Consensus        99 ~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A           99 LIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            77766554 455666777777777777777777777776655322 4556666666777777777777777666543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.39  E-value=1.8e-11  Score=110.98  Aligned_cols=296  Identities=9%  Similarity=-0.019  Sum_probs=202.8

Q ss_pred             HHhcCCchHHHHHHHHHHhcccCC-CC-hH-HHHHHHHHHH-hhcCCHHHHH-----------HHHhhcccCCCCccHHH
Q 015590          101 LAQAKRFDAIEDIMQRIKVEKLCR-FS-DG-FFYNVIKIYG-NMAGRISKAI-----------ETLFDMPSYNCWPSVKT  165 (404)
Q Consensus       101 ~~~~~~~~~a~~~~~~~~~~~~~~-~~-~~-~~~~~l~~~~-~~~g~~~~A~-----------~~~~~m~~~~~~p~~~~  165 (404)
                      +.+.+++++|..+++.+...-... .+ +. .++.++..-+ ...++.+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            457899999999999986543221 12 21 2233322211 1133444444           5555554321  11111


Q ss_pred             ------HHHHHHHHHhcCcHhHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHchhC----C--
Q 015590          166 ------FNLVLNLLVSAKLYGEIQGIYTSAAKL----GVEI-DACCLNILLKGLCENGNLEAAFYVLDEFPKQ----N--  228 (404)
Q Consensus       166 ------~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~--  228 (404)
                            +......+...|++++|...+++..+.    +-++ ...++..+...|...|++++|...+++..+.    +  
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  222556678899999999999999864    2111 3467889999999999999999999887642    1  


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CC
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-AD----TVTFNILISGLRKQGKVEEGMKLLERMKGK----GC  299 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~  299 (404)
                      .+....+++.+...|...|++++|+..|++..+.... ++    ..++..+...|...|++++|...+++..+.    +.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence            0122457888999999999999999999987643111 11    247888999999999999999999998772    22


Q ss_pred             -CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHcCCC---hHHHHHHHHHHHHCCCCC
Q 015590          300 -YPNSASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPSFVSYKKLIHGLCNQKL---VEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       300 -~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p  371 (404)
                       .....++..+...+.+.|++++|.+.+++..+.    +-+.....+..+...+...|+   +++|..++++.   +..|
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~  336 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYA  336 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHH
Confidence             223567888999999999999999999988753    111122345667788889999   67777777665   4444


Q ss_pred             CHH-hHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          372 RMG-MWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       372 ~~~-~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      +.. .+..+-..|...|+.+.+...++..-+
T Consensus       337 ~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            443 566666788899999888877766543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.38  E-value=2.6e-10  Score=105.53  Aligned_cols=309  Identities=8%  Similarity=-0.019  Sum_probs=203.1

Q ss_pred             ccCCCCCC---CCCccchhhcccCCCCCHHHHHHHHhcCC-----ChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhc
Q 015590           33 LASPSASH---QDSDHHAYKLNHKDWLSPTEVLKIFSNLR-----DPISVISVLNQYSKRKDYNPNEALYTLIINKLAQA  104 (404)
Q Consensus        33 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~  104 (404)
                      ++...|..   ..+..++.+.-..+...+..+-..+...+     ++++|+..|++..+. |   +...+..|...|...
T Consensus        44 ~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~~~  119 (452)
T 3e4b_A           44 IQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFAN-G---EGNTLIPLAMLYLQY  119 (452)
T ss_dssp             ---------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHT-T---CSSCHHHHHHHHHHC
T ss_pred             HHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHhC
Confidence            33444555   56666666554446777777777555555     778999999999763 2   223666777777776


Q ss_pred             CCchH---HHHHHHHHHhcccCCCChHHHHHHHHHHHhhcC----CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcC
Q 015590          105 KRFDA---IEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG----RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAK  177 (404)
Q Consensus       105 ~~~~~---a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  177 (404)
                      +..++   +.+.+......+    .....+.+...+.. .+    ..+++..+++.....    ++..+..+...|.+.|
T Consensus       120 ~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~-~~~~~~~~~~a~~~~~~a~~~----~~~a~~~Lg~~~~~~g  190 (452)
T 3e4b_A          120 PHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRT-QGTYDQHLDDVERICKAALNT----TDICYVELATVYQKKQ  190 (452)
T ss_dssp             GGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHH-HTCGGGGHHHHHHHHHHHTTT----CTTHHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHc-CCCcccCHHHHHHHHHHHHcC----CHHHHHHHHHHHHHcC
Confidence            65444   444444443332    12333444444443 45    455555566655543    3337888888898999


Q ss_pred             ---cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc----CChHHHHHHHHHchhCCCCCcHHHHHHHHHH-H--HHcC
Q 015590          178 ---LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN----GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-L--CEKG  247 (404)
Q Consensus       178 ---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~--~~~~  247 (404)
                         +.++|++.|+...+.| +++...+..+..+|...    +++++|..+|+... .|   +...+..+... |  ...+
T Consensus       191 ~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~  265 (452)
T 3e4b_A          191 QPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELG  265 (452)
T ss_dssp             CHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGC
T ss_pred             CcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCC
Confidence               9999999999999988 66777667788888665    79999999999987 43   55566666666 3  4688


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC-----CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCC
Q 015590          248 NVEEAFGLLERMESEGIDADTVTFNILISGLRKQG-----KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD----KKR  318 (404)
Q Consensus       248 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~  318 (404)
                      ++++|+..|++..+.|   +...+..|...|. .|     +.++|...|++.. .|   +...+..|...|..    ..+
T Consensus       266 d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~~G~g~~~d  337 (452)
T 3e4b_A          266 DVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYRRGYLGKVY  337 (452)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHHTTTTSSCC
T ss_pred             CHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHHCCCCCCcC
Confidence            9999999999998876   6677777877777 45     9999999999888 44   66777777777766    348


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCChHHHHHHHHHHHHCCCC
Q 015590          319 FPEAKELVGRMICERMSPSFVSYKKLIHGLCN----QKLVEDVDWVLKKMVQQGFV  370 (404)
Q Consensus       319 ~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~  370 (404)
                      .++|.+.|++..+.|. |  .....+...|..    ..+.++|...|+...+.|..
T Consensus       338 ~~~A~~~~~~Aa~~g~-~--~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~  390 (452)
T 3e4b_A          338 PQKALDHLLTAARNGQ-N--SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP  390 (452)
T ss_dssp             HHHHHHHHHHHHTTTC-T--THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHHHhhCh-H--HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH
Confidence            9999999999988763 3  344455556653    56899999999999887754

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.36  E-value=8.2e-11  Score=108.91  Aligned_cols=287  Identities=11%  Similarity=0.038  Sum_probs=181.7

Q ss_pred             CHHHHHHHHhcCCCh---hHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcC-----CchHHHHHHHHHHhcccCCCChH
Q 015590           57 SPTEVLKIFSNLRDP---ISVISVLNQYSKRKDYNPNEALYTLIINKLAQAK-----RFDAIEDIMQRIKVEKLCRFSDG  128 (404)
Q Consensus        57 ~~~~li~~~~~~~~~---~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~  128 (404)
                      ++..+-..|...|++   ++|+..|++..+.     ++..+..+...+...+     ++++|...|+.....+   . ..
T Consensus        37 A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~-----~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g---~-~~  107 (452)
T 3e4b_A           37 AQVGLADIQVGTRDPAQIKQAEATYRAAADT-----SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANG---E-GN  107 (452)
T ss_dssp             GGGTCC---------------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTT---C-SS
T ss_pred             HHHHHHHHHHccCCCCCHHHHHHHHHHHHhC-----CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCC---C-HH
Confidence            344444455556666   8888888887532     5556666666555554     6778888888877654   1 12


Q ss_pred             HHHHHHHHHHhhcCC---HHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 015590          129 FFYNVIKIYGNMAGR---ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILL  205 (404)
Q Consensus       129 ~~~~~l~~~~~~~g~---~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  205 (404)
                      ..+++-..+.. .+.   -.++.+.+......|   +...+..+...|...+.++++......+.+.-...+...+..|.
T Consensus       108 A~~~Lg~~y~~-~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg  183 (452)
T 3e4b_A          108 TLIPLAMLYLQ-YPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELA  183 (452)
T ss_dssp             CHHHHHHHHHH-CGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHHHHh-CCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHH
Confidence            33444333333 222   144555555554433   34466667777777775554444433333222233444888999


Q ss_pred             HHHHhcC---ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-
Q 015590          206 KGLCENG---NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK----GNVEEAFGLLERMESEGIDADTVTFNILISG-  277 (404)
Q Consensus       206 ~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-  277 (404)
                      ..|.+.|   +.++|...|+...+.| +++...+..+...|...    +++++|+..|++.. .|   +...+..+... 
T Consensus       184 ~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~  258 (452)
T 3e4b_A          184 TVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLL  258 (452)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHH
T ss_pred             HHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHH
Confidence            9999999   9999999999999988 67777667777777655    69999999999987 32   56667777666 


Q ss_pred             H--HcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcC-----ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          278 L--RKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKK-----RFPEAKELVGRMICERMSPSFVSYKKLIHGLCN  350 (404)
Q Consensus       278 ~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  350 (404)
                      +  ...++.++|...|++..+.|   +...+..|...|. .|     ++++|.+.|++..    .-+...+..+...|..
T Consensus       259 ~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa----~g~~~A~~~Lg~~y~~  330 (452)
T 3e4b_A          259 YDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV----GREVAADYYLGQIYRR  330 (452)
T ss_dssp             HHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT----TTCHHHHHHHHHHHHT
T ss_pred             HhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh----CCCHHHHHHHHHHHHC
Confidence            4  56899999999999999887   6677777877776 45     9999999999887    3466777777777766


Q ss_pred             ----CCChHHHHHHHHHHHHCCC
Q 015590          351 ----QKLVEDVDWVLKKMVQQGF  369 (404)
Q Consensus       351 ----~g~~~~a~~~~~~m~~~~~  369 (404)
                          ..+.++|...|++..+.|.
T Consensus       331 G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          331 GYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             TTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             CCCCCcCHHHHHHHHHHHHhhCh
Confidence                4489999999999887664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=6.6e-10  Score=100.15  Aligned_cols=199  Identities=12%  Similarity=0.069  Sum_probs=91.3

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHc----CCC--C-CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC----CCcHHH
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKL----GVE--I-DACCLNILLKGLCENGNLEAAFYVLDEFPKQNC----EPNVRT  235 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~  235 (404)
                      ..+...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++..+..-    +....+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            34444455555555555555554432    111  1 123344455555555555555555555432210    011234


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHH-----HHHHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhH
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADT-VTFN-----ILISGLRKQGKVEEGMKLLERMKGKGCYPN---SASY  306 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~-~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~  306 (404)
                      +..+...+...|++++|...+++.......++. ..+.     ..+..+...|+.++|...+++.......+.   ...+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            455555555666666666666555432111110 1111     122234455666666666655544321111   1133


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC----CCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICE----RMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      ..+...+...|++++|.+.+++....    |..++. ..+..+..++...|+.++|...+++..
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al  320 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  320 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            44555555666666666666555432    111111 134444455556666666666665544

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.35  E-value=2.4e-10  Score=103.28  Aligned_cols=296  Identities=7%  Similarity=-0.050  Sum_probs=199.8

Q ss_pred             hcCCChhHHHHHHHHHhhCC-CCCCCH--HHHHHHHHH--HHhcCCchHHH---------HHHHHHHhcccCCCChH---
Q 015590           66 SNLRDPISVISVLNQYSKRK-DYNPNE--ALYTLIINK--LAQAKRFDAIE---------DIMQRIKVEKLCRFSDG---  128 (404)
Q Consensus        66 ~~~~~~~~a~~~~~~~~~~~-~~~p~~--~~~~~li~~--~~~~~~~~~a~---------~~~~~~~~~~~~~~~~~---  128 (404)
                      ...++.++|..+++.+.+.. ....|.  ..|-.++..  ..-.+.++...         +.++.+.... .+.++.   
T Consensus        23 i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~-~~~~~~l~~  101 (378)
T 3q15_A           23 IRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETIETPQ-KKLTGLLKY  101 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHHHGGG-HHHHHHHHH
T ss_pred             HHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHHhccC-CCCccHHHH
Confidence            67789999999999875421 222333  333444432  11123333333         6666654322 001111   


Q ss_pred             HHHHHHHHHHhhcCCHHHHHHHHhhcccCCC-Cc----cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-----C-CC
Q 015590          129 FFYNVIKIYGNMAGRISKAIETLFDMPSYNC-WP----SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-----E-ID  197 (404)
Q Consensus       129 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----~-~~  197 (404)
                      .++.....++...|++++|+..|++..+.-. .+    ...++..+...+...|+++.|...+++..+...     . ..
T Consensus       102 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  181 (378)
T 3q15_A          102 YSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRT  181 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHH
T ss_pred             HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhH
Confidence            1222333344448999999999998765310 12    235788899999999999999999998875411     1 12


Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCC
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCE-PNVRTYSTLMHGLCEKGNVEEAFGLLERMES-----EGIDAD  267 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~-----~~~~p~  267 (404)
                      ..+++.+...|...|++++|...|++..+.    +-+ ....++..+...|...|++++|...|++..+     .... .
T Consensus       182 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~-~  260 (378)
T 3q15_A          182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDL-L  260 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGG-H
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChh-H
Confidence            457888999999999999999999887642    211 1235788889999999999999999999876     4322 3


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC----CCCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCCC-HH
Q 015590          268 TVTFNILISGLRKQGKVEEGMKLLERMKGKG----CYPNSASYQEVLYGLLDKKR---FPEAKELVGRMICERMSPS-FV  339 (404)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~-~~  339 (404)
                      ..++..+...|.+.|++++|...+++..+..    -......+..+...+...++   +.+|+.++++.   +..|+ ..
T Consensus       261 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~  337 (378)
T 3q15_A          261 PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEA  337 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHH
Confidence            6778889999999999999999999987642    11123345555566667777   77777777663   22333 34


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          340 SYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       340 ~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .+..+...|...|++++|...|++..+
T Consensus       338 ~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          338 CARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666788999999999999999998864

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.35  E-value=6.8e-10  Score=100.05  Aligned_cols=270  Identities=11%  Similarity=-0.023  Sum_probs=188.0

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCH----HHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh---HHHHHHH
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNE----ALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD---GFFYNVI  134 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l  134 (404)
                      -..+...|++++|...+++.+...+ ..+.    .++..+...+...|++++|.+.+++.........+.   ......+
T Consensus        21 a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           21 AQVAINDGNPDEAERLAKLALEELP-PGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCC-TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCC-CCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3456678999999999999877542 1222    246667778889999999999999876532111111   1112233


Q ss_pred             HHHHhhcCCHHHHHHHHhhcccC----CCC--c-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCC--C--CHhHHHH
Q 015590          135 KIYGNMAGRISKAIETLFDMPSY----NCW--P-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVE--I--DACCLNI  203 (404)
Q Consensus       135 ~~~~~~~g~~~~A~~~~~~m~~~----~~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~--~~~~~~~  203 (404)
                      ...+...|++++|.+.+++..+.    +..  | ....+..+...+...|++++|...+++..+..-.  +  ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            33333489999999999887542    221  2 2346677888899999999999999998765321  1  2356778


Q ss_pred             HHHHHHhcCChHHHHHHHHHchhCCCCCc-HHHHH-----HHHHHHHHcCCHHHHHHHHHHHHHCCCCC---CHHHHHHH
Q 015590          204 LLKGLCENGNLEAAFYVLDEFPKQNCEPN-VRTYS-----TLMHGLCEKGNVEEAFGLLERMESEGIDA---DTVTFNIL  274 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~-----~li~~~~~~~~~~~A~~~~~~m~~~~~~p---~~~~~~~l  274 (404)
                      +...+...|++++|...+++.....-.++ ...+.     ..+..+...|++++|...+++.......+   ....+..+
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~l  259 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  259 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHH
Confidence            88999999999999999998764311111 11222     23345779999999999999887543221   12356777


Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhC----CCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGK----GCYPNS-ASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      ...+...|++++|...+++....    |..++. ..+..+..++...|+.++|...+++....
T Consensus       260 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          260 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            88899999999999999987643    222222 35666777888999999999999988753

>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=99.34  E-value=8.4e-11  Score=114.24  Aligned_cols=165  Identities=16%  Similarity=0.094  Sum_probs=127.7

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ..+|+.+...+.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|...|++..+.. +-+..+|..+...
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4578888888888888888888888887764 4457778888888888888888888888877764 5567788888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      |.+.|++++|++.|++..+.... +...|+.+...|...|++++|++.|++..+... -+...+..+...+...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P-~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLKP-DFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHhhhhhHHHhcccHHHH
Confidence            88888888888888887766433 567788888888888888888888888877631 1456778888888888888888


Q ss_pred             HHHHHHHHH
Q 015590          323 KELVGRMIC  331 (404)
Q Consensus       323 ~~~~~~~~~  331 (404)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888777654

>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=99.32  E-value=2.9e-11  Score=104.06  Aligned_cols=203  Identities=15%  Similarity=0.050  Sum_probs=111.7

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHc------CC-CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC------C-
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKL------GV-EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ------N-  228 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------g~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------~-  228 (404)
                      ..++..+...+...|++++|...++++.+.      +- +....++..+...|...|++++|...|++..+.      . 
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            345666666666666666666666665543      11 223445666666666667766666666665442      1 


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE------GIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGK----  297 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----  297 (404)
                      .+....++..+...|...|++++|...|++..+.      +-.| ...++..+...|...|++++|...+++..+.    
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            1223455666667777777777777777666543      1112 2345666777777777777777777766542    


Q ss_pred             ---CCCCCh-hhHHHHHHHHHhcCChhHHHHHHHHHHH---C-C--CCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          298 ---GCYPNS-ASYQEVLYGLLDKKRFPEAKELVGRMIC---E-R--MSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       298 ---~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~---~-~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                         ...+.. ..|..+.......+....+.. +..+..   . +  .+....++..+...|...|++++|..++++..+
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAP-YGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC-------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHH-HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               112222 223333333333232222222 211111   0 1  112335677788888889999999998888764

>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=99.32  E-value=1.2e-10  Score=113.15  Aligned_cols=168  Identities=18%  Similarity=0.076  Sum_probs=148.3

Q ss_pred             CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 015590          195 EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNIL  274 (404)
Q Consensus       195 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~l  274 (404)
                      |-+..+++.|...|.+.|++++|.+.|++..+.. +-+..+|+.+...|.+.|++++|+..|++..+.... +...|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            3457789999999999999999999999998875 567889999999999999999999999999887433 57889999


Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCh
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLV  354 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~  354 (404)
                      ...|...|++++|++.|++..+... -+...|..+...+.+.|++++|++.|++..+.. +-+...|..+..++...|++
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            9999999999999999999988732 256889999999999999999999999998863 33578899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 015590          355 EDVDWVLKKMVQ  366 (404)
Q Consensus       355 ~~a~~~~~~m~~  366 (404)
                      ++|.+.+++..+
T Consensus       162 ~~A~~~~~kal~  173 (723)
T 4gyw_A          162 TDYDERMKKLVS  173 (723)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988764

>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=99.30  E-value=9.7e-10  Score=91.67  Aligned_cols=199  Identities=12%  Similarity=-0.003  Sum_probs=125.4

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      |+..+......+...|++++|...|+...+...+++...+..+..+|...|++++|...|+...+.. +.+..+|..+..
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHH
Confidence            4566666777777777777777777777766532566666667777777777777777777776654 445666777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhHHHHHH
Q 015590          242 GLCEKGNVEEAFGLLERMESEGIDADT-------VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN---SASYQEVLY  311 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~  311 (404)
                      .|...|++++|+..|++..+.... +.       ..|..+...+...|++++|...|++..+.  .|+   ...|..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            777777777777777777665322 23       34666666777777788888888777765  343   345555555


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 015590          312 GLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG  374 (404)
Q Consensus       312 ~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  374 (404)
                      .+...     +..+++++...+ ..+...|....  ....+.+++|...+++..+  +.|+..
T Consensus       162 ~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~--l~p~~~  214 (228)
T 4i17_A          162 LFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVT--LSPNRT  214 (228)
T ss_dssp             HHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhh--cCCCCH
Confidence            55443     333444444432 23344444333  2234557788888877774  345443

>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=99.27  E-value=2.4e-08  Score=96.00  Aligned_cols=201  Identities=7%  Similarity=-0.068  Sum_probs=142.0

Q ss_pred             hHHHHHHHHHHhcCChHHHH-HHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---------CCC-
Q 015590          199 CCLNILLKGLCENGNLEAAF-YVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI---------DAD-  267 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~---------~p~-  267 (404)
                      ..|-..+..+...|+.++|. .+|+..... ++.+...|-..+...-+.|++++|..+|+++.+...         .|+ 
T Consensus       344 ~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~  422 (679)
T 4e6h_A          344 EIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTN  422 (679)
T ss_dssp             HHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcc
Confidence            34444455556677777886 888887764 256667788888888889999999999998875310         132 


Q ss_pred             -----------HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc-CChhHHHHHHHHHHHCCCC
Q 015590          268 -----------TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK-KRFPEAKELVGRMICERMS  335 (404)
Q Consensus       268 -----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~  335 (404)
                                 ...|...+....+.|+.+.|..+|.+..+.-..+....|...+..-.+. ++.+.|.++|+...+. .+
T Consensus       423 ~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p  501 (679)
T 4e6h_A          423 ESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FA  501 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HT
T ss_pred             hhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CC
Confidence                       2367777888788889999999999988761122334444333333344 4589999999988876 45


Q ss_pred             CCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC--CHHhHHHHHHhhccCCCCcchhhHHHhhhh
Q 015590          336 PSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVP--RMGMWREIVGCVTFGKDNRNRVYVTETVDS  401 (404)
Q Consensus       336 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~~~~~~~~~~~  401 (404)
                      -+...|...++.....|+.+.|+.+|+..++....+  ....|...+..-...|+.+.+..|.+.+.+
T Consensus       502 ~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~  569 (679)
T 4e6h_A          502 TDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFE  569 (679)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            566777788888888899999999999988543322  234677777776778888888888877653

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.24  E-value=1.1e-10  Score=100.55  Aligned_cols=230  Identities=13%  Similarity=0.062  Sum_probs=150.9

Q ss_pred             cCCChhHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-----cCCCChHHHHHHHH
Q 015590           67 NLRDPISVISVLNQYSKR------KDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK-----LCRFSDGFFYNVIK  135 (404)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~------~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~~l~  135 (404)
                      ..|++++|+..|++.++.      ...+....++..+...+...|++++|...++.+....     ...+.....+..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            346666666666665541      1123346778899999999999999999999876541     11223333444444


Q ss_pred             HHHhhcCCHHHHHHHHhhcccC------CCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc------C-CCCCHhHH
Q 015590          136 IYGNMAGRISKAIETLFDMPSY------NCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL------G-VEIDACCL  201 (404)
Q Consensus       136 ~~~~~~g~~~~A~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------g-~~~~~~~~  201 (404)
                      ..+...|++++|.+.|++..+.      .-.| ...++..+...+...|++++|...+++..+.      + .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            4444599999999999987653      1113 3567888999999999999999999998875      1 12345678


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhC-------CCCC-cHHHHHHHHHHHHHcCCHH------HHHHHHHHHHHCCCCCC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQ-------NCEP-NVRTYSTLMHGLCEKGNVE------EAFGLLERMESEGIDAD  267 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~-~~~~~~~li~~~~~~~~~~------~A~~~~~~m~~~~~~p~  267 (404)
                      ..+...|...|++++|...+++..+.       ...+ ....|..+...+...+...      ++...++..... ....
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  251 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SPTV  251 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CHHH
Confidence            88999999999999999999987653       1122 2233444433333333322      222222221111 1123


Q ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          268 TVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       268 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ..++..+...|...|++++|...|++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457888999999999999999999988754

>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=99.24  E-value=7.7e-10  Score=92.28  Aligned_cols=154  Identities=12%  Similarity=-0.055  Sum_probs=127.8

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          196 IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       196 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                      .|+..+......+...|++++|...|+...+...+++...+..+...+...|++++|+..|++..+.... +...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4567888899999999999999999999988763378888888999999999999999999999887543 567888999


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCCCCCh-------hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGCYPNS-------ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPS---FVSYKKLI  345 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~---~~~~~~li  345 (404)
                      ..|...|++++|...|++..+... .+.       ..|..+...+...|++++|++.+++..+.  .|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            999999999999999999988631 133       45777888889999999999999999875  565   46677777


Q ss_pred             HHHHcCCC
Q 015590          346 HGLCNQKL  353 (404)
Q Consensus       346 ~~~~~~g~  353 (404)
                      .+|...|+
T Consensus       161 ~~~~~~~~  168 (228)
T 4i17_A          161 VLFYNNGA  168 (228)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77765554

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.24  E-value=2e-08  Score=86.22  Aligned_cols=249  Identities=10%  Similarity=0.040  Sum_probs=171.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      |+-..-.|++..++.-...+   .+..++ ..-.-+.+++...|+++..         .  ...+......++..|.. .
T Consensus        20 ikn~fy~G~yq~~i~e~~~~---~~~~~~-~~~~~~~Rs~iAlg~~~~~---------~--~~~~~~~a~~~la~~~~-~   83 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKF---SKVTDN-TLLFYKAKTLLALGQYQSQ---------D--PTSKLGKVLDLYVQFLD-T   83 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTS---SCCCCH-HHHHHHHHHHHHTTCCCCC---------C--SSSTTHHHHHHHHHHHT-T
T ss_pred             HHHHHHhhHHHHHHHHHHhc---CccchH-HHHHHHHHHHHHcCCCccC---------C--CCCHHHHHHHHHHHHhc-c
Confidence            45566678999888844333   222333 3444556788888887741         1  12233334555566654 2


Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-CCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-EIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      +    |+..|++..+.+ .++..++..+..++...|++++|++++.+.+..|- .-+...+..++..+.+.|+.+.|.+.
T Consensus        84 ~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~  158 (310)
T 3mv2_B           84 K----NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTI  158 (310)
T ss_dssp             T----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             c----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            2    788888887765 45666667888899999999999999998876652 24667788889999999999999999


Q ss_pred             HHHchhCCCCC-----cHHHHHHHHHH--HHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHH
Q 015590          221 LDEFPKQNCEP-----NVRTYSTLMHG--LCEKG--NVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLL  291 (404)
Q Consensus       221 ~~~~~~~~~~~-----~~~~~~~li~~--~~~~~--~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  291 (404)
                      ++.|.+.  .|     +..+...++.+  ....|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.+
T Consensus       159 l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L  234 (310)
T 3mv2_B          159 FDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIV  234 (310)
T ss_dssp             HHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHH
Confidence            9999876  45     34555556655  33334  899999999998766  345334444555888999999999999


Q ss_pred             HHHhhCC---------CCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH
Q 015590          292 ERMKGKG---------CYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV  339 (404)
Q Consensus       292 ~~m~~~~---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~  339 (404)
                      +.+.+.-         -+-+..+...+|......|+  +|.++++++.+.  .|+..
T Consensus       235 ~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          235 ELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             HHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            8766530         02256677666666666776  888999999875  45543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.19  E-value=3.8e-09  Score=95.37  Aligned_cols=187  Identities=12%  Similarity=0.094  Sum_probs=108.7

Q ss_pred             cCCHHHHHHHHhhcccC----C-CCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc----CCC-CCHhHHHHHHHHHH
Q 015590          141 AGRISKAIETLFDMPSY----N-CWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL----GVE-IDACCLNILLKGLC  209 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~----~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~-~~~~~~~~li~~~~  209 (404)
                      .|++++|...+++..+.    + ..+ ...+++.+...+...|++++|.+.+++..+.    +-+ ....++..+...|.
T Consensus       154 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~  233 (378)
T 3q15_A          154 MKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYD  233 (378)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            55555555555544321    1 011 1345666666677777777777776665542    111 12345666777777


Q ss_pred             hcCChHHHHHHHHHchh-----CCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHc
Q 015590          210 ENGNLEAAFYVLDEFPK-----QNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI----DADTVTFNILISGLRK  280 (404)
Q Consensus       210 ~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~----~p~~~~~~~li~~~~~  280 (404)
                      ..|++++|...|++..+     .. +....++..+...|.+.|++++|...+++..+...    +.....+..+...+..
T Consensus       234 ~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~  312 (378)
T 3q15_A          234 RSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKE  312 (378)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSS
T ss_pred             HCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhC
Confidence            77777777777776654     32 33355666777777777777777777777654321    1122344555555666


Q ss_pred             CCC---HHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          281 QGK---VEEGMKLLERMKGKGCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       281 ~g~---~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      .|+   ..+|...+++..   ..| ....+..+...|...|++++|.+.|++..+
T Consensus       313 ~~~~~~~~~al~~~~~~~---~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          313 TVDERKIHDLLSYFEKKN---LHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             SCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHhCC---ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666   666666665522   122 234556677777777888888877777654

>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=99.17  E-value=2.4e-09  Score=80.57  Aligned_cols=125  Identities=15%  Similarity=0.163  Sum_probs=49.6

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK  246 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  246 (404)
                      ..+...+...|++++|..+++.+.+.. +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            333444444444444444444444332 2233334444444444444444444444443332 22333344444444444


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      |++++|...++++.+.... +...+..+...+...|++++|...++++
T Consensus        83 ~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~  129 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKA  129 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHH
Confidence            4444444444444332211 2333333334444444444444444433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=2e-09  Score=93.46  Aligned_cols=211  Identities=12%  Similarity=0.017  Sum_probs=151.9

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHc----CCCCC-HhHHHHHHHHHHhcCChHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKL----GVEID-ACCLNILLKGLCENGNLEAA  217 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~~-~~~~~~li~~~~~~g~~~~a  217 (404)
                      ++++|...|++.               ...|...|++++|...|++..+.    |-+++ ..+|+.+..+|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            478887777765               44677889999999999887654    32222 56888999999999999999


Q ss_pred             HHHHHHchhC----CCCCc--HHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCCC-C----HHHHHHHHHHHHcCCCHH
Q 015590          218 FYVLDEFPKQ----NCEPN--VRTYSTLMHGLCEK-GNVEEAFGLLERMESEGIDA-D----TVTFNILISGLRKQGKVE  285 (404)
Q Consensus       218 ~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~-~~~~~A~~~~~~m~~~~~~p-~----~~~~~~li~~~~~~g~~~  285 (404)
                      ...|++..+.    | .+.  ..+++.+...|... |++++|+..|++..+..... +    ..++..+...+...|+++
T Consensus        97 ~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A           97 VDSLENAIQIFTHRG-QFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            9998877643    2 111  45788889999996 99999999999876531110 1    356888899999999999


Q ss_pred             HHHHHHHHHhhCCCCCCh------hhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH--cC
Q 015590          286 EGMKLLERMKGKGCYPNS------ASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSF------VSYKKLIHGLC--NQ  351 (404)
Q Consensus       286 ~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~------~~~~~li~~~~--~~  351 (404)
                      +|...|++..+.......      ..|..+..++...|++++|...+++..+.  .|+.      ..+..++.++.  ..
T Consensus       176 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~  253 (292)
T 1qqe_A          176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDS  253 (292)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCH
Confidence            999999999886332221      15677778889999999999999998763  3432      13444556664  45


Q ss_pred             CChHHHHHHHHHHHHCCCCCCH
Q 015590          352 KLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       352 g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      +++++|...|+.+.  .+.|+.
T Consensus       254 ~~~~~A~~~~~~~~--~l~~~~  273 (292)
T 1qqe_A          254 EQLSEHCKEFDNFM--RLDKWK  273 (292)
T ss_dssp             TTHHHHHHHHTTSS--CCCHHH
T ss_pred             HHHHHHHHHhccCC--ccHHHH
Confidence            67888888887664  455544

>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=99.16  E-value=3.3e-08  Score=95.10  Aligned_cols=343  Identities=11%  Similarity=0.041  Sum_probs=207.8

Q ss_pred             ccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCC---chHHHHHHHHHHhcccCCCCh
Q 015590           51 NHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKR---FDAIEDIMQRIKVEKLCRFSD  127 (404)
Q Consensus        51 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~  127 (404)
                      ++-|..+|..++..+.+.+..+.+..+|+.++..  ++.....|...+..-.+.++   ++.+..+|++.......+ ++
T Consensus        62 np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~-~s  138 (679)
T 4e6h_A           62 QPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGN-ND  138 (679)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCC-CC
T ss_pred             CcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCC-CC
Confidence            3457889999999999999999999999999876  57778889999988888888   999999999987543112 34


Q ss_pred             HHHHHHHHHHHhhcCCH--------HHHHHHHhhccc-CCC-Ccc-HHHHHHHHHHHH---------hcCcHhHHHHHHH
Q 015590          128 GFFYNVIKIYGNMAGRI--------SKAIETLFDMPS-YNC-WPS-VKTFNLVLNLLV---------SAKLYGEIQGIYT  187 (404)
Q Consensus       128 ~~~~~~l~~~~~~~g~~--------~~A~~~~~~m~~-~~~-~p~-~~~~~~ll~~~~---------~~~~~~~a~~~~~  187 (404)
                      ..+|..-..+....++.        +...++|+.... .|. .|+ ...|...+....         ..++++.+..+|+
T Consensus       139 v~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~  218 (679)
T 4e6h_A          139 LSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYK  218 (679)
T ss_dssp             HHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHH
Confidence            44555544444434432        344577776543 454 443 467777776543         2345677888888


Q ss_pred             HHHHcCCCCCHhHHHHHHHHHHh-------------cCChHHHHHH----------------------------------
Q 015590          188 SAAKLGVEIDACCLNILLKGLCE-------------NGNLEAAFYV----------------------------------  220 (404)
Q Consensus       188 ~~~~~g~~~~~~~~~~li~~~~~-------------~g~~~~a~~~----------------------------------  220 (404)
                      .++......-..+|......--.             ..+++.|..+                                  
T Consensus       219 raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~  298 (679)
T 4e6h_A          219 TLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYD  298 (679)
T ss_dssp             HHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCC
T ss_pred             HHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhH
Confidence            87743111111222111110000             0112222222                                  


Q ss_pred             ---------------------------------HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHH-HHHHHHHHCCCCC
Q 015590          221 ---------------------------------LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAF-GLLERMESEGIDA  266 (404)
Q Consensus       221 ---------------------------------~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~-~~~~~m~~~~~~p  266 (404)
                                                       |++....- +.+...|-..+.-+.+.|+.++|. .+|++.... ++.
T Consensus       299 ~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~  376 (679)
T 4e6h_A          299 VQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPN  376 (679)
T ss_dssp             HHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTT
T ss_pred             HHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCC
Confidence                                             22222211 223334444555555667777775 888877654 223


Q ss_pred             CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC---------CCCC------------hhhHHHHHHHHHhcCChhHHHHH
Q 015590          267 DTVTFNILISGLRKQGKVEEGMKLLERMKGKG---------CYPN------------SASYQEVLYGLLDKKRFPEAKEL  325 (404)
Q Consensus       267 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~li~~~~~~g~~~~a~~~  325 (404)
                      +...|...+....+.|++++|..+|+++....         ..|+            ...|...+....+.|..+.|.++
T Consensus       377 s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~v  456 (679)
T 4e6h_A          377 SAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKI  456 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            55556777777888888888888888877531         0132            23577777777778888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHcC-CChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhHHHhh
Q 015590          326 VGRMICERMSPSFVSYKKLIHGLCNQ-KLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYVTETV  399 (404)
Q Consensus       326 ~~~~~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~  399 (404)
                      |.++.+.-..+....|...+..-.+. ++.+.|.++|+..++. +.-+...|...+......++.+.+..+++..
T Consensus       457 f~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lfera  530 (679)
T 4e6h_A          457 FGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESS  530 (679)
T ss_dssp             HHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            88887651112233343333322333 4588888888888875 3334455666666666667777777777653

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.14  E-value=3.8e-09  Score=79.53  Aligned_cols=127  Identities=13%  Similarity=0.129  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD  315 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  315 (404)
                      |..+...+...|++++|..+|+++.+.+.. +...+..+...+...|++++|...++++...+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            333444444444444444444444433211 33344444444444444444444444444332 1133444444555555


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          316 KKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       316 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            555555555555554431 2234445555555555555555555555554

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.11  E-value=1.7e-09  Score=105.32  Aligned_cols=170  Identities=11%  Similarity=0.001  Sum_probs=81.9

Q ss_pred             hcCCChhHHHHHHHHHh--------hCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH-HHHHHHH
Q 015590           66 SNLRDPISVISVLNQYS--------KRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF-FYNVIKI  136 (404)
Q Consensus        66 ~~~~~~~~a~~~~~~~~--------~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~~l~~  136 (404)
                      ...|++++|+..|++++        +.  .+.+...+..+...+...|++++|.+.++.+.+..   |.+.. ++++-..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~---p~~~~a~~~lg~~  476 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD--FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV---GWRWRLVWYRAVA  476 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C--CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---CCCHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc--cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC---cchHHHHHHHHHH
Confidence            44555555555555554        21  12334445555555555555555555555554433   22222 2222222


Q ss_pred             HHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHH
Q 015590          137 YGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEA  216 (404)
Q Consensus       137 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~  216 (404)
                      +.. .|++++|++.|++..+.. +-+...|..+..++.+.|++++ ++.|++..+.. +.+...+..+..+|.+.|++++
T Consensus       477 ~~~-~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~  552 (681)
T 2pzi_A          477 ELL-TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVG  552 (681)
T ss_dssp             HHH-HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHH-cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHH
Confidence            332 555555555555554432 1123445555555555555555 55555555543 3344455555555555555555


Q ss_pred             HHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          217 AFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       217 a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      |...|++..+.+ +.+...|..+..++..
T Consensus       553 A~~~~~~al~l~-P~~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          553 AVRTLDEVPPTS-RHFTTARLTSAVTLLS  580 (681)
T ss_dssp             HHHHHHTSCTTS-TTHHHHHHHHHHHTC-
T ss_pred             HHHHHHhhcccC-cccHHHHHHHHHHHHc
Confidence            555555555442 2233444444444433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.11  E-value=5.6e-09  Score=85.77  Aligned_cols=131  Identities=14%  Similarity=0.097  Sum_probs=66.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 015590          204 LLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGK  283 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  283 (404)
                      +..+|.+.|++++|...|++..+.. +.+...|..+...|...|++++|+..|++..+.... +..+|..+...|...|+
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~  137 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAE  137 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhH
Confidence            5566666666666666666665554 445556666666666666666666666666554322 44555555555543332


Q ss_pred             --HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHH
Q 015590          284 --VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVS  340 (404)
Q Consensus       284 --~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~  340 (404)
                        .+.+...++.....  .|....+.....++...|++++|...|++..+  ..|+...
T Consensus       138 ~~~~~~~~~~~~~~~~--~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~  192 (208)
T 3urz_A          138 QEKKKLETDYKKLSSP--TKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEA  192 (208)
T ss_dssp             HHHHHHHHHHC---CC--CHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHH
T ss_pred             HHHHHHHHHHHHHhCC--CchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHH
Confidence              22333333333211  11112222233334445566666666666654  2455433

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.10  E-value=4.8e-08  Score=83.80  Aligned_cols=178  Identities=13%  Similarity=0.069  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          182 IQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC-EPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       182 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ++..+++..+.+ +++..+...+..++...|++++|++++.+....|- .-+...+..++..+.+.|+.+.|.+.+++|.
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            455555555444 34444445666666666666666666666554431 1345556666666666666666666666665


Q ss_pred             HCCCCC-----CHHHHHHHHHHH--Hc--CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          261 SEGIDA-----DTVTFNILISGL--RK--QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       261 ~~~~~p-----~~~~~~~li~~~--~~--~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      +.  .|     +..+...+..++  ..  .++..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            54  33     234444444442  22  23666666666666554  33322333333356666666666666665543


Q ss_pred             C-----CC----CCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          332 E-----RM----SPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       332 ~-----~~----~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .     +.    +-|..+...+|......|+  +|.++++++.+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence            2     00    2234444344444444554  66666666663

>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=7.1e-09  Score=90.03  Aligned_cols=188  Identities=10%  Similarity=0.002  Sum_probs=129.8

Q ss_pred             cCCHHHHHHHHhhcccC----CCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC---CC--CHhHHHHHHHHHHh
Q 015590          141 AGRISKAIETLFDMPSY----NCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV---EI--DACCLNILLKGLCE  210 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~---~~--~~~~~~~li~~~~~  210 (404)
                      .|++++|.+.|++..+.    |-+++ ..+|+.+..+|.+.|++++|+..+++..+...   .+  -..+++.+...|..
T Consensus        50 ~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~  129 (292)
T 1qqe_A           50 RKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILEN  129 (292)
T ss_dssp             TTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            67777777776655431    21122 45788888888888888888888887765421   11  13577888888998


Q ss_pred             c-CChHHHHHHHHHchhCCC---CC-c-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH------HHHHHHHHH
Q 015590          211 N-GNLEAAFYVLDEFPKQNC---EP-N-VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTV------TFNILISGL  278 (404)
Q Consensus       211 ~-g~~~~a~~~~~~~~~~~~---~~-~-~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~------~~~~li~~~  278 (404)
                      . |++++|...|++..+...   .+ . ..+++.+...|.+.|++++|+..|++..+........      .|..+..++
T Consensus       130 ~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~  209 (292)
T 1qqe_A          130 DLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQ  209 (292)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHH
T ss_pred             hhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHH
Confidence            6 999999999988765310   11 1 3568888999999999999999999988764432221      567778888


Q ss_pred             HcCCCHHHHHHHHHHHhhCCCCCCh------hhHHHHHHHHH--hcCChhHHHHHHHHHH
Q 015590          279 RKQGKVEEGMKLLERMKGKGCYPNS------ASYQEVLYGLL--DKKRFPEAKELVGRMI  330 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~--~~g~~~~a~~~~~~~~  330 (404)
                      ...|++++|...|++..+.  .|+.      ..+..++.++.  ..+++++|++.|+.+.
T Consensus       210 ~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          210 LAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            8999999999999998865  2221      13444555554  3466788888877664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=1.1e-08  Score=87.13  Aligned_cols=95  Identities=12%  Similarity=0.038  Sum_probs=45.4

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc----HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC--CCCHhHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS----VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV--EIDACCLNI  203 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~--~~~~~~~~~  203 (404)
                      .+.....+.. .|++++|...|+++.+..  |+    ...+..+..++.+.|++++|...|+...+...  +.....+..
T Consensus        18 ~~~~a~~~~~-~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           18 AFERAMEFYN-QGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHH-hCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            3333333433 555555555555555432  22    33445555555555555555555555555421  111233444


Q ss_pred             HHHHHHh--------cCChHHHHHHHHHchhC
Q 015590          204 LLKGLCE--------NGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       204 li~~~~~--------~g~~~~a~~~~~~~~~~  227 (404)
                      +..++..        .|++++|...|+++.+.
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            4444554        55555555555554443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=5.9e-09  Score=88.86  Aligned_cols=105  Identities=4%  Similarity=-0.158  Sum_probs=67.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCC-hHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCC-Ccc-HH
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS-DGFFYNVIKIYGNMAGRISKAIETLFDMPSYNC-WPS-VK  164 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~-~p~-~~  164 (404)
                      +.+...+..+...+.+.|++++|...|+.+.......+. ...++.+...+.. .|++++|+..|++..+... .|. ..
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~-~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQ-NKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHH-hCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            345666777777777888888888888887655411111 2333444444444 7888888888887766421 112 34


Q ss_pred             HHHHHHHHHHh--------cCcHhHHHHHHHHHHHcC
Q 015590          165 TFNLVLNLLVS--------AKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       165 ~~~~ll~~~~~--------~~~~~~a~~~~~~~~~~g  193 (404)
                      .+..+..++..        .|++++|+..|+++.+..
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~  127 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY  127 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC
Confidence            56666777777        788888888888877763

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.05  E-value=9.7e-09  Score=84.32  Aligned_cols=138  Identities=9%  Similarity=0.010  Sum_probs=103.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD  315 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  315 (404)
                      ++.+...|.+.|++++|+..|++..+.... +...+..+...+...|++++|...|++..+.. +-+...|..+...|..
T Consensus        57 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           57 ATELALAYKKNRNYDKAYLFYKELLQKAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            344888999999999999999999887544 67889999999999999999999999999874 2256788888887766


Q ss_pred             cCC--hhHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHH
Q 015590          316 KKR--FPEAKELVGRMICERMSPSFV--SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVG  381 (404)
Q Consensus       316 ~g~--~~~a~~~~~~~~~~~~~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  381 (404)
                      .|+  .+.+...+....    .|+..  .+.....++...|++++|...|++.+  .+.|+......+.+
T Consensus       135 ~~~~~~~~~~~~~~~~~----~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al--~l~P~~~~~~~l~~  198 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLS----SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVI--LRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHHHHC-------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHT--TTSCCHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHh----CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHH--HhCCCHHHHHHHHH
Confidence            553  345555565553    34443  34445556777899999999999998  67788765554443

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.03  E-value=5.8e-08  Score=79.90  Aligned_cols=178  Identities=15%  Similarity=0.027  Sum_probs=109.1

Q ss_pred             HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC----CHHHHHHHH
Q 015590          181 EIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG----NVEEAFGLL  256 (404)
Q Consensus       181 ~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~----~~~~A~~~~  256 (404)
                      +|.+.|+...+.|   +...+..+...|...+++++|..+|+...+.|   +..++..+...|.. +    ++++|+..|
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            3455555555543   45556666666666667777777776666554   44555555555555 4    677777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHh----cCChhHHHHHHH
Q 015590          257 ERMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCY-PNSASYQEVLYGLLD----KKRFPEAKELVG  327 (404)
Q Consensus       257 ~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~  327 (404)
                      ++..+.|   +...+..|...|..    .+++++|..+|++..+.|.. .+...+..|-..|..    .+++++|.+.|+
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            7766553   45566666666665    66777777777777766421 014566666666666    667777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcC-C-----ChHHHHHHHHHHHHCCCC
Q 015590          328 RMICERMSPSFVSYKKLIHGLCNQ-K-----LVEDVDWVLKKMVQQGFV  370 (404)
Q Consensus       328 ~~~~~~~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~~~~  370 (404)
                      +..+.  ..+...+..+...|... |     +.++|...|++..+.|..
T Consensus       154 ~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          154 GSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            77664  23334555555555432 2     677777777777766543

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.03  E-value=1.1e-08  Score=81.49  Aligned_cols=161  Identities=12%  Similarity=0.006  Sum_probs=82.4

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH-HH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-LC  244 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~  244 (404)
                      +......+.+.|++++|...|++..+.. |.+...+..+...|...|++++|...|+...+..  |+...+...... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            3344445555666666666665555442 3345555556666666666666666666555442  233222221111 11


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHHHHhcCChhHHH
Q 015590          245 EKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP-NSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      +.+...+|...|++..+.... +...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANPD-NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            112223345555555544222 34555566666666666666666666666553221 2345556666666666666666


Q ss_pred             HHHHHHH
Q 015590          324 ELVGRMI  330 (404)
Q Consensus       324 ~~~~~~~  330 (404)
                      ..|++..
T Consensus       165 ~~y~~al  171 (176)
T 2r5s_A          165 SKYRRQL  171 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6665543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.02  E-value=3.9e-08  Score=85.11  Aligned_cols=166  Identities=16%  Similarity=0.061  Sum_probs=122.1

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHH-H
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYST-L  239 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~-l  239 (404)
                      .+...+..+...+.+.|++++|...|++..+.. +-+...+..+...|...|++++|...++.+....  |+...... .
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~  191 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVA  191 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHH
Confidence            344566777777888888888888888888775 5567788888888888888888888888887663  44433222 2


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHHHhcCC
Q 015590          240 MHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY-PNSASYQEVLYGLLDKKR  318 (404)
Q Consensus       240 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~  318 (404)
                      ...+.+.++.++|...|++....... +...+..+...+...|++++|...|.++.+.... .+...+..+...+...|+
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~  270 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGT  270 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCC
Confidence            33366677778888888887776433 5677788888888888888888888888876322 125677888888888888


Q ss_pred             hhHHHHHHHHHH
Q 015590          319 FPEAKELVGRMI  330 (404)
Q Consensus       319 ~~~a~~~~~~~~  330 (404)
                      .++|...+++..
T Consensus       271 ~~~a~~~~r~al  282 (287)
T 3qou_A          271 GDALASXYRRQL  282 (287)
T ss_dssp             TCHHHHHHHHHH
T ss_pred             CCcHHHHHHHHH
Confidence            888888777654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.01  E-value=3.2e-07  Score=79.32  Aligned_cols=216  Identities=11%  Similarity=-0.014  Sum_probs=132.7

Q ss_pred             HHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcC--cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHH----Hhc---CCh
Q 015590          145 SKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAK--LYGEIQGIYTSAAKLGVEIDACCLNILLKGL----CEN---GNL  214 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~----~~~---g~~  214 (404)
                      ++|+++++++...+  |+ ...|+.--..+...+  ++++++++++.+.... +-+..+|+.--..+    .+.   +++
T Consensus        50 ~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~  126 (306)
T 3dra_A           50 ERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDP  126 (306)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCT
T ss_pred             HHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCH
Confidence            45555555555533  33 234555555555555  6666666666666553 33444454443333    333   566


Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC------HHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVE--EAFGLLERMESEGIDADTVTFNILISGLRKQGK------VEE  286 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~--~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~------~~~  286 (404)
                      ++++.+++.+.+.. +.+..+|+.-...+.+.|.++  ++++.++++.+..+. |...|+.-...+.+.|.      +++
T Consensus       127 ~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          127 YREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhHHH
Confidence            77777777766655 566667766666666666666  777777777766554 66666665555555555      677


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHHcCCChHHHHHHHHH
Q 015590          287 GMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE-AKELVGRMICER--MSPSFVSYKKLIHGLCNQKLVEDVDWVLKK  363 (404)
Q Consensus       287 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  363 (404)
                      +++.++++....+. |...|+.+-..+.+.|+..+ +..+..++.+.+  -..+...+..+.++|.+.|+.++|.++++.
T Consensus       205 El~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          205 ELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            77777777766422 66677776666666666433 445555554432  134667777777888888888888888888


Q ss_pred             HHH
Q 015590          364 MVQ  366 (404)
Q Consensus       364 m~~  366 (404)
                      +.+
T Consensus       284 l~~  286 (306)
T 3dra_A          284 LKS  286 (306)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.00  E-value=5.4e-08  Score=84.16  Aligned_cols=166  Identities=14%  Similarity=0.026  Sum_probs=105.2

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHH
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN  167 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  167 (404)
                      +.+...+..+...+...|++++|...++.+....   |.+...+..+...+...|++++|...+++.....  |+.....
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~  188 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS---NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQG  188 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT---TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC---CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHH
Confidence            3445566667777777788888888887776554   3333333333333333778888888887776643  4443222


Q ss_pred             H-HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc--HHHHHHHHHHHH
Q 015590          168 L-VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN--VRTYSTLMHGLC  244 (404)
Q Consensus       168 ~-ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~  244 (404)
                      . ....+.+.++.++|.+.+++..+.. +.+...+..+...|...|++++|...|.++.+.. +.+  ...+..+...+.
T Consensus       189 ~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~-p~~~~~~a~~~l~~~~~  266 (287)
T 3qou_A          189 LVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXD-LTAADGQTRXTFQEILA  266 (287)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTGGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc-cccccchHHHHHHHHHH
Confidence            2 2223555666667777777777664 5566777777777777777777777777776653 212  556777777777


Q ss_pred             HcCCHHHHHHHHHHHH
Q 015590          245 EKGNVEEAFGLLERME  260 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~  260 (404)
                      ..|+.++|...|++..
T Consensus       267 ~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          267 ALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHCTTCHHHHHHHHHH
T ss_pred             HcCCCCcHHHHHHHHH
Confidence            7777777777766543

>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=98.98  E-value=2.5e-08  Score=97.05  Aligned_cols=173  Identities=9%  Similarity=-0.083  Sum_probs=138.8

Q ss_pred             HhcCcHhHHHHHHHHHH--------HcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          174 VSAKLYGEIQGIYTSAA--------KLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      ...|++++|++.+++..        +.. +.+...+..+...|...|++++|...|++..+.+ +.+...|..+..+|.+
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            67889999999999988        432 5566788888999999999999999999988765 5677889999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHH
Q 015590          246 KGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKEL  325 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  325 (404)
                      .|++++|+..|++..+.... +...|..+...|.+.|++++ .+.|++..+.+ +-+...|..+..++.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998876433 56788888899999999999 99999988764 22567888899999999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHHcCCC
Q 015590          326 VGRMICERMSPS-FVSYKKLIHGLCNQKL  353 (404)
Q Consensus       326 ~~~~~~~~~~p~-~~~~~~li~~~~~~g~  353 (404)
                      |+++.+.  .|+ ...+..+..++...|+
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9988764  555 4566667777766554

>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=98.98  E-value=1.7e-08  Score=96.30  Aligned_cols=152  Identities=7%  Similarity=-0.119  Sum_probs=68.6

Q ss_pred             CCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHH
Q 015590          105 KRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQG  184 (404)
Q Consensus       105 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  184 (404)
                      |++++|.+.+++..+..   |.+...+..+...+...|++++|.+.|++..+.. +.+...|..+...+...|++++|.+
T Consensus         3 g~~~~A~~~~~~al~~~---p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR---PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            45555555555554332   2222222222222222555666666555555433 1234455555555555556666665


Q ss_pred             HHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc---CCHHHHHHHHHHHHH
Q 015590          185 IYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK---GNVEEAFGLLERMES  261 (404)
Q Consensus       185 ~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~---~~~~~A~~~~~~m~~  261 (404)
                      .+++..+.. +.+...+..+..+|.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|...+++..+
T Consensus        79 ~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           79 LLQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            555555543 3344555555555555555555555555555443 33445555555555555   555555555555554


Q ss_pred             C
Q 015590          262 E  262 (404)
Q Consensus       262 ~  262 (404)
                      .
T Consensus       157 ~  157 (568)
T 2vsy_A          157 Q  157 (568)
T ss_dssp             H
T ss_pred             c
Confidence            4

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.97  E-value=5.9e-09  Score=80.73  Aligned_cols=137  Identities=12%  Similarity=0.025  Sum_probs=84.6

Q ss_pred             cCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .|++++|+..+.......  |+ ...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|..
T Consensus        10 ~~~~e~ai~~~~~a~~~~--p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~   86 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSP--RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVE   86 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSH--HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cChHHHHHHHHHHhcccC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHH
Confidence            566777777776665532  33 2345566667777777777777777776664 4566677777777777777777777


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGL-LERMESEGIDADTVTFNILISGLRKQG  282 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~-~~~m~~~~~~p~~~~~~~li~~~~~~g  282 (404)
                      .|+...+.. +.+..+|..+...|.+.|+.++|... +++..+..+. +...|......+...|
T Consensus        87 ~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           87 CYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            777766654 44566677777777777776655444 3555554222 4455555544444444

>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=98.97  E-value=2.9e-08  Score=79.02  Aligned_cols=161  Identities=16%  Similarity=-0.011  Sum_probs=84.6

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHH-
Q 015590           94 YTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNL-  172 (404)
Q Consensus        94 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~-  172 (404)
                      +......+...|++++|...++......   |.+...+..+...+...|++++|+..|++.....  |+...+...... 
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~---P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~   83 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL---QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLE   83 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH---HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHH
Confidence            3344555666666666666666654433   2333333333333333677777777776665533  333222221111 


Q ss_pred             HHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC-cHHHHHHHHHHHHHcCCHHH
Q 015590          173 LVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP-NVRTYSTLMHGLCEKGNVEE  251 (404)
Q Consensus       173 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~  251 (404)
                      +...+...++...++...+.. |.+...+..+...+...|++++|...|+++.+....+ +...+..+...+...|+.++
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence            111122233556666665553 3345666666666666666666666666666553111 23456666666666666666


Q ss_pred             HHHHHHHHH
Q 015590          252 AFGLLERME  260 (404)
Q Consensus       252 A~~~~~~m~  260 (404)
                      |...|++..
T Consensus       163 A~~~y~~al  171 (176)
T 2r5s_A          163 IASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666666543

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.96  E-value=7.4e-08  Score=80.05  Aligned_cols=57  Identities=11%  Similarity=0.118  Sum_probs=32.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHhhCCCCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          274 LISGLRKQGKVEEGMKLLERMKGKGCYPN----SASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       274 li~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +...|.+.|++++|...|+++.+.  .|+    ...+..+..++.+.|+.++|.+.++.+...
T Consensus       153 ~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          153 VAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            344555566666666666666554  222    134555566666666666666666665554

>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=98.96  E-value=4.7e-08  Score=80.46  Aligned_cols=163  Identities=13%  Similarity=0.001  Sum_probs=78.8

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC----ChHHHHHHHHHchhCCCCCcHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG----NLEAAFYVLDEFPKQNCEPNVRTYS  237 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g----~~~~a~~~~~~~~~~~~~~~~~~~~  237 (404)
                      ++..+..+...+...+++++|...|+...+.|   +...+..|...|.. +    ++++|..+|+...+.|   +..++.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            34444445555555555555555555555443   33444444444444 3    5555555555554433   334444


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHH
Q 015590          238 TLMHGLCE----KGNVEEAFGLLERMESEGID-ADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQE  308 (404)
Q Consensus       238 ~li~~~~~----~~~~~~A~~~~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~  308 (404)
                      .+...|..    .+++++|+..|++..+.|.. .+...+..|...|..    .++.++|...|++..+.  ..+...+..
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~  167 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYW  167 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHH
Confidence            44444444    45555555555555544321 013444455555544    45555555555555544  113334444


Q ss_pred             HHHHHHhc-C-----ChhHHHHHHHHHHHCC
Q 015590          309 VLYGLLDK-K-----RFPEAKELVGRMICER  333 (404)
Q Consensus       309 li~~~~~~-g-----~~~~a~~~~~~~~~~~  333 (404)
                      |...|... |     +.++|.+.|+...+.|
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            44444332 2     5555666655555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.96  E-value=5.6e-07  Score=77.83  Aligned_cols=152  Identities=9%  Similarity=-0.014  Sum_probs=75.9

Q ss_pred             CcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChH--HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC------
Q 015590          177 KLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLE--AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN------  248 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~------  248 (404)
                      +++++++++++.+.+.. +-+..+|+.-.-...+.|.++  ++++.++.+.+.+ +.|..+|+.-...+.+.+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence            34445555555555443 334444544444444445444  5555555555443 3444455444444444443      


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH-HHHHHHHHhhCC--CCCChhhHHHHHHHHHhcCChhHHHHH
Q 015590          249 VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE-GMKLLERMKGKG--CYPNSASYQEVLYGLLDKKRFPEAKEL  325 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~  325 (404)
                      ++++++.++++....+. |...|+.+-..+.+.|+... +..+..++.+.+  -..+...+..+.+.+.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            55556665555554433 55555555555555554322 333444433321  122445566666666666666666666


Q ss_pred             HHHHHH
Q 015590          326 VGRMIC  331 (404)
Q Consensus       326 ~~~~~~  331 (404)
                      ++.+.+
T Consensus       281 ~~~l~~  286 (306)
T 3dra_A          281 YDLLKS  286 (306)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            666654

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.95  E-value=9.4e-08  Score=79.41  Aligned_cols=199  Identities=9%  Similarity=-0.012  Sum_probs=97.3

Q ss_pred             HHHHhcCCChhHHHHHHHHHhhCCCCCCC-HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh-HHHHHHHHHHHh
Q 015590           62 LKIFSNLRDPISVISVLNQYSKRKDYNPN-EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD-GFFYNVIKIYGN  139 (404)
Q Consensus        62 i~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~~l~~~~~  139 (404)
                      ...+.+.|++++|+..|+++++..+..|. ...+..+..++.+.|++++|...|+.+.......+.. ..++.+...+..
T Consensus        11 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~~~   90 (225)
T 2yhc_A           11 AQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTNMA   90 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHHHh
Confidence            34455566666666666666554322221 2455556666666666666666666655443111110 012222222222


Q ss_pred             hcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          140 MAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                       .|..     .+            ..|..+...+...|++++|...|+.+.+.. |-+...+........          
T Consensus        91 -~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l~~----------  141 (225)
T 2yhc_A           91 -LDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRLVF----------  141 (225)
T ss_dssp             -HHC-------------------------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHHHH----------
T ss_pred             -hhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHHHH----------
Confidence             1100     00            011122222334567777777777777653 222222222111000          


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD--TVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      +...+        ......+...|.+.|++++|+..|+++.+......  ...+..+..+|.+.|+.++|.+.++.+...
T Consensus       142 ~~~~~--------~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          142 LKDRL--------AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHH--------HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHH--------HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            00000        01123455667778888888888888776532211  245677778888888888888888877776

>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=98.93  E-value=8.9e-09  Score=79.69  Aligned_cols=142  Identities=9%  Similarity=-0.100  Sum_probs=78.9

Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                      ++...|++++|...++...... +.+...+-.+...|.+.|++++|+..|++..+.... +..+|..+...|...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHH
Confidence            3344456666666666555432 223344555666666666666666666666655332 45566666666666666666


Q ss_pred             HHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          287 GMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKEL-VGRMICERMSPSFVSYKKLIHGLCNQK  352 (404)
Q Consensus       287 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~-~~~~~~~~~~p~~~~~~~li~~~~~~g  352 (404)
                      |...|++..+... -+...|..+...|.+.|+.++|.+. +++..+.. +-+...|......+...|
T Consensus        84 A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~-P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF-PGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhC
Confidence            6666666665521 1345666666666666666655443 35555431 224455554445555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.93  E-value=3.3e-06  Score=78.68  Aligned_cols=308  Identities=10%  Similarity=-0.041  Sum_probs=169.0

Q ss_pred             CChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCC-chHHHHHHHHHHhcccCCCChHHHHHHHHHHHh----hcCC
Q 015590           69 RDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKR-FDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN----MAGR  143 (404)
Q Consensus        69 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~  143 (404)
                      |+++.+..+|++.+..   .|+...|..-+....+.++ .+....+|+.....-+..+.+..+|..-..+..    ..++
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            6788888888888653   4688888777777666653 355666777665432122334455555555533    1356


Q ss_pred             HHHHHHHHhhcccCCCCccHHHHH------------------------------------------------HHHHHHHh
Q 015590          144 ISKAIETLFDMPSYNCWPSVKTFN------------------------------------------------LVLNLLVS  175 (404)
Q Consensus       144 ~~~A~~~~~~m~~~~~~p~~~~~~------------------------------------------------~ll~~~~~  175 (404)
                      .+.+..+|++........-...|.                                                ..+..-..
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            777788887776531110011222                                                11111111


Q ss_pred             c--C--c---HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          176 A--K--L---YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       176 ~--~--~---~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      .  +  +   .+.+..+|+++.... +.+...|...+..+.+.|+++.|..++++....  +.+...|..    |....+
T Consensus       185 ~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e  257 (493)
T 2uy1_A          185 NGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMD  257 (493)
T ss_dssp             CTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTT
T ss_pred             CCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcc
Confidence            0  0  0   223455666655542 445666666667777777777777777777665  333333322    222211


Q ss_pred             HHHHHHHHHHHHHCC---------CCC---CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh-
Q 015590          249 VEEAFGLLERMESEG---------IDA---DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD-  315 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~---------~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-  315 (404)
                      .++.   ++.+.+.-         ..+   ....|...+..+.+.++.+.|..+|++. ... ..+...|......-.. 
T Consensus       258 ~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~  332 (493)
T 2uy1_A          258 EEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYA  332 (493)
T ss_dssp             CTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHH
T ss_pred             hhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHH
Confidence            1111   22222110         000   1234555666666677889999999988 321 2234444432222222 


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCCCcchhhH
Q 015590          316 KKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKDNRNRVYV  395 (404)
Q Consensus       316 ~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~~~~~  395 (404)
                      .++.+.|.++|+...+. .+-+...+...++...+.|+.+.|+.+|+.+.     .....|...+.-=...|+.+.+..+
T Consensus       333 ~~d~~~ar~ife~al~~-~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v  406 (493)
T 2uy1_A          333 TGSRATPYNIFSSGLLK-HPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFREL  406 (493)
T ss_dssp             HCCSHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            23689999999988775 22345556667777778899999998888862     2455666666544455666666654


Q ss_pred             HH
Q 015590          396 TE  397 (404)
Q Consensus       396 ~~  397 (404)
                      ++
T Consensus       407 ~~  408 (493)
T 2uy1_A          407 VD  408 (493)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.92  E-value=3.9e-08  Score=93.88  Aligned_cols=154  Identities=10%  Similarity=-0.036  Sum_probs=119.8

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|++.|++..+.. +.+...|..+...+.+.|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            588999999999988754 2346789999999999999999999999999875 55788999999999999999999999


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC---CCHHHHHHHHHHHhhC
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ---GKVEEGMKLLERMKGK  297 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~  297 (404)
                      +++..+.. +.+...|..+...|.+.|++++|...|++..+.... +...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            99988775 567889999999999999999999999999877433 577888899999999   9999999999999887


Q ss_pred             C
Q 015590          298 G  298 (404)
Q Consensus       298 ~  298 (404)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.87  E-value=3.6e-08  Score=86.18  Aligned_cols=129  Identities=12%  Similarity=0.069  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhC----CCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC----C-CH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQ----NCEPN--VRTYSTLMHGLCEKGNVEEAFGLLERMESEGID----A-DT  268 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~----p-~~  268 (404)
                      +|+.+...|.+.|++++|...|++..+.    | .+.  ..+++.+...|.. |++++|+..|++..+....    + ..
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHH
Confidence            3444444444445555444444443221    1 111  2344445555555 5555555555554322000    0 02


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMKGK----GCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      .++..+...|.+.|++++|...|++..+.    +..+. ...+..+..++...|++++|...|++..
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            34555555556666666666666555432    11111 1234444445555566666666666655

>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=98.86  E-value=4.1e-07  Score=74.56  Aligned_cols=126  Identities=13%  Similarity=-0.017  Sum_probs=101.1

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      ++....+.. .|++++|+..|++..    .|+...|..+...+.+.|++++|...++...+.. +.+...+..+..+|..
T Consensus        10 ~~~g~~~~~-~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A           10 WNEGVLAAD-KKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-hCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            344444454 899999999998885    3677888889999999999999999999988875 5677888888999999


Q ss_pred             cCChHHHHHHHHHchhCCCCCc----------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPN----------------VRTYSTLMHGLCEKGNVEEAFGLLERMESEG  263 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~----------------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  263 (404)
                      .|++++|...|+...+.. +.+                ...+..+...|.+.|++++|...|++..+..
T Consensus        84 ~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            999999999998887653 222                2677888888888999999999998887764

>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=98.84  E-value=3.9e-07  Score=74.68  Aligned_cols=129  Identities=7%  Similarity=-0.124  Sum_probs=99.5

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+..+...+...|++++|...|++..    +|+..++..+...|.+.|++++|...|+...+.. +.+...|..+...|
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            345566777778888888888887763    5677888888888888888888888888877665 55677888888888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCC--------------C-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          244 CEKGNVEEAFGLLERMESEGID--------------A-DTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~--------------p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|++++|...|++..+....              | ....+..+...|.+.|++++|...|++..+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            8888888888888888775322              1 1256777778888888888888888888776

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.81  E-value=4.7e-07  Score=76.66  Aligned_cols=191  Identities=12%  Similarity=-0.053  Sum_probs=126.3

Q ss_pred             cCCChhHHHHHHHHHhhCCCCCCCHHHHHHH-------HHHHHhcCCchHHHHHHHHHHhccc----------C------
Q 015590           67 NLRDPISVISVLNQYSKRKDYNPNEALYTLI-------INKLAQAKRFDAIEDIMQRIKVEKL----------C------  123 (404)
Q Consensus        67 ~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~l-------i~~~~~~~~~~~a~~~~~~~~~~~~----------~------  123 (404)
                      ..+++..|.+.|.++.+..  +-....|..+       ...+.+.++..++...+..-.....          .      
T Consensus        18 ~~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            5789999999999998754  4456677766       4555555555555555544332100          0      


Q ss_pred             --CCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC--Hh
Q 015590          124 --RFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID--AC  199 (404)
Q Consensus       124 --~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~  199 (404)
                        ..+...+...........|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+.. .|.  ..
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHH
Confidence              00111222223333334899999999999988765  654455566667888899999999887554432 121  23


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEP--NVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+..+..++...|++++|+..|++.......|  ..........++.+.|+.++|..+|+++...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            67778888888899999998888886443214  3345666777788888888888888888876

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.78  E-value=1.6e-07  Score=82.09  Aligned_cols=198  Identities=12%  Similarity=0.066  Sum_probs=142.9

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHh-cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS-AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .|++++|.+++++..+..  +.  .       +.+ .++++.|...|...               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~--~~--~-------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL--KT--S-------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CC--C-------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc--cc--c-------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            577888888888765421  11  0       112 46777777777654               456778899999998


Q ss_pred             HHHHchhC----CCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC---CCCC--HHHHHHHHHHHHcCCCHHHHHH
Q 015590          220 VLDEFPKQ----NCEP-NVRTYSTLMHGLCEKGNVEEAFGLLERMESEG---IDAD--TVTFNILISGLRKQGKVEEGMK  289 (404)
Q Consensus       220 ~~~~~~~~----~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~---~~p~--~~~~~~li~~~~~~g~~~~a~~  289 (404)
                      .|.+..+.    +-++ -..+|+.+...|.+.|++++|+..|++..+.-   -.+.  ..++..+...|.. |++++|..
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            88876542    2111 14578888999999999999999999875431   1111  3577888888988 99999999


Q ss_pred             HHHHHhhC----CCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHcCCChHHHHH
Q 015590          290 LLERMKGK----GCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPS-FVSYKKLIHGLCNQKLVEDVDW  359 (404)
Q Consensus       290 ~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~  359 (404)
                      .|++..+.    +..+ ...++..+...+.+.|++++|++.|++..+.    +..+. ...+..+..++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99987654    1111 1467888899999999999999999998763    11111 2356667778888899999999


Q ss_pred             HHHHHH
Q 015590          360 VLKKMV  365 (404)
Q Consensus       360 ~~~~m~  365 (404)
                      .|++..
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999988

>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=98.76  E-value=4.2e-07  Score=71.04  Aligned_cols=127  Identities=14%  Similarity=0.015  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC  244 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  244 (404)
                      .|..+...+...|++++|...++...+.. +.+..++..+...+...|++++|...++...+.. +.+...|..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            44455555555666666666666555543 3345555555555666666666666665555443 334455555555555


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHcCCCHHHHHHHHHHH
Q 015590          245 EKGNVEEAFGLLERMESEGIDADTVTFN--ILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~~~~~p~~~~~~--~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      ..|++++|...|++..+.... +...+.  .....+...|++++|...+...
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            666666666666555544221 222222  2222244445555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.76  E-value=4.2e-07  Score=67.00  Aligned_cols=97  Identities=15%  Similarity=0.169  Sum_probs=54.1

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..|..+...+...|++++|.+.++++.+.. +.+..++..+...+.+.|++++|...|+.+.+.. +.+..++..+...|
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            445555555566666666666666655543 3344555555555666666666666665555443 33445555555555


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|++++|...|+++.+.
T Consensus        88 ~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHh
Confidence            5556666666555555443

>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=98.75  E-value=7.5e-06  Score=71.64  Aligned_cols=140  Identities=8%  Similarity=-0.070  Sum_probs=66.3

Q ss_pred             HhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcC-CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhc-C-c
Q 015590          102 AQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG-RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSA-K-L  178 (404)
Q Consensus       102 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~-~  178 (404)
                      .+.+..++|.++++.+....   |.....|+.-.......| .+++++++++.+.... +-+..+|+.-...+.+. + +
T Consensus        65 ~~~e~se~AL~lt~~~L~~n---P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~  140 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN---PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQD  140 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSC
T ss_pred             HhCCCCHHHHHHHHHHHHhC---chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCC
Confidence            33344456666666665544   444444444333333344 3666666666665543 12334555544444444 4 4


Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChH--------HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLE--------AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG  247 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  247 (404)
                      +++++++++.+.+.. +-+..+|+.-.-...+.|.++        ++++.++++.+.. +.|..+|+.....+.+.+
T Consensus       141 ~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~  215 (349)
T 3q7a_A          141 PVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRP  215 (349)
T ss_dssp             CHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTST
T ss_pred             hHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcc
Confidence            555555555555443 334445544444444333333        4444444444433 334444444444444433

>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=98.75  E-value=4.6e-06  Score=72.14  Aligned_cols=163  Identities=13%  Similarity=0.071  Sum_probs=114.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHchhCC-CCCcH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHHHHH
Q 015590          204 LLKGLCENGNLEAAFYVLDEFPKQN-CEPNV----RTYSTLMHGLCEKGNVEEAFGLLERMESEGID-AD----TVTFNI  273 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~~~~~~-~~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~----~~~~~~  273 (404)
                      .+..+...|++++|...+++..+.. ..|+.    ..+..+...+...|++++|+..|++....... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            4667788888888888888876532 12221    12334666666777888898888888774322 22    236788


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHhhC-----CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHH
Q 015590          274 LISGLRKQGKVEEGMKLLERMKGK-----GCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSPS-FVSYK  342 (404)
Q Consensus       274 li~~~~~~g~~~~a~~~~~~m~~~-----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~  342 (404)
                      +...|...|++++|...|++..+.     +..+. ..++..+...|.+.|++++|.+.+++..+.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888899999998888887741     11122 246788888899999999999998887643    22232 56788


Q ss_pred             HHHHHHHcCCC-hHHHHHHHHHHHH
Q 015590          343 KLIHGLCNQKL-VEDVDWVLKKMVQ  366 (404)
Q Consensus       343 ~li~~~~~~g~-~~~a~~~~~~m~~  366 (404)
                      .+..+|.+.|+ +++|.+.+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            88888999994 6899988888764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.74  E-value=4e-07  Score=67.88  Aligned_cols=97  Identities=13%  Similarity=-0.027  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+......+.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++|...|+...+.+ +.+...|..+..+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            356666777777777777777777776664 4566677777777777777777777777766654 45566677777777


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|++++|...|++..+.
T Consensus        92 ~~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            7777777777777776665

>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=98.72  E-value=1.5e-07  Score=81.07  Aligned_cols=194  Identities=14%  Similarity=0.022  Sum_probs=128.4

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +...+..+...+.+.|++++|...|+...+.. +.+...+..+..+|.+.|++++|...++...+.. +.+...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45677788888899999999999999988874 4578888889999999999999999999988775 567788888999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH
Q 015590          242 GLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE  321 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  321 (404)
                      +|...|++++|...|++..+.... +...+...+....+   ..++.. +..........+......+ ..+ ..|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~i~~~l-~~l-~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALR---IAKKKR-WNSIEERRIHQESELHSYL-TRL-IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHHH-HHHHHHTCCCCCCHHHHHH-HHH-HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHH---HHHHHH-HHHHHHHHHhhhHHHHHHH-HHH-HHHHHHH
Confidence            999999999999999887654211 10111111111111   111111 1222223333344443333 222 3688889


Q ss_pred             HHHHHHHHHHCCCCCCHH-HHHHHHHHHHcC-CChHHHHHHHHHHHH
Q 015590          322 AKELVGRMICERMSPSFV-SYKKLIHGLCNQ-KLVEDVDWVLKKMVQ  366 (404)
Q Consensus       322 a~~~~~~~~~~~~~p~~~-~~~~li~~~~~~-g~~~~a~~~~~~m~~  366 (404)
                      |++.++...+.  .|+.. ....+-..+.+. +.+++|.++|.+..+
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            98888887764  45543 333443444444 668889999987765

>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=98.70  E-value=9.3e-06  Score=71.05  Aligned_cols=178  Identities=8%  Similarity=-0.013  Sum_probs=126.0

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhc
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAK-RFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMA  141 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  141 (404)
                      ......+..++|+.+++.++...  +-+..+|+.--..+...+ +++++.++++.+....   |.+...|+--.......
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n---PKny~aW~hR~wlL~~l  136 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN---LKSYQVWHHRLLLLDRI  136 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT---CCCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHh
Confidence            34444556678999999998754  445667888877888888 5999999999987655   55555555443333333


Q ss_pred             -C-CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHh--------HHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          142 -G-RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYG--------EIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       142 -g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                       + ++++++++++++.+.+ +.|..+|+.-.-.+.+.+.++        ++++.++.+.+.. +-|...|+.....+.+.
T Consensus       137 ~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l  214 (349)
T 3q7a_A          137 SPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSR  214 (349)
T ss_dssp             CCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTS
T ss_pred             cCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence             5 8899999999998865 346678877666666666666        8899999998876 56888888888888777


Q ss_pred             CC-------hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          212 GN-------LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       212 g~-------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      +.       ++++++.+++..... +-|...|+-+-..+.+.|+
T Consensus       215 ~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          215 PGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             cccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            76       566666666666554 5566666665555555544

>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=98.69  E-value=2.5e-07  Score=73.50  Aligned_cols=120  Identities=8%  Similarity=0.060  Sum_probs=63.1

Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH-HHHcCCH--HH
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-LCEKGNV--EE  251 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~~~~~--~~  251 (404)
                      ..|++++|...++...+.. +.+...+..+...|...|++++|...|+...+.. +.+...|..+... +...|++  ++
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            3455555555555555443 3445555555566666666666666665555443 3344455555555 5555555  66


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          252 AFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       252 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      |...|++..+.... +...+..+...|...|++++|...|++..+.
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            66666655554322 3445555555566666666666666665554

>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=98.68  E-value=8.8e-07  Score=69.17  Aligned_cols=94  Identities=13%  Similarity=0.032  Sum_probs=43.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK  280 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  280 (404)
                      +..+...+...|++++|...|+...+.. +.+..+|..+...+...|++++|...|++..+.... +...|..+...+..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHH
Confidence            3444444455555555555555444432 233444444444555555555555555444433211 33344444444444


Q ss_pred             CCCHHHHHHHHHHHhh
Q 015590          281 QGKVEEGMKLLERMKG  296 (404)
Q Consensus       281 ~g~~~~a~~~~~~m~~  296 (404)
                      .|++++|...|++..+
T Consensus        94 ~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           94 LGKFRAALRDYETVVK  109 (166)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHH
Confidence            4444444444444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.68  E-value=4.9e-07  Score=67.28  Aligned_cols=116  Identities=13%  Similarity=0.041  Sum_probs=58.8

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+...+
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            345555555555556666666555555443 3344555555555555555555555555554432 33344555555555


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          244 CEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQG  282 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  282 (404)
                      ...|++++|...|++..+.... +...+..+...+...|
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLR  128 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHT
T ss_pred             HHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHh
Confidence            5555555555555555443221 3334444444444333

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.67  E-value=2.1e-06  Score=72.64  Aligned_cols=193  Identities=9%  Similarity=-0.038  Sum_probs=128.4

Q ss_pred             cCCHHHHHHHHhhcccCCCCcc-HHHHHHH-------HHHHHhcCcHhHHHHHHHHHHHcCCCCC---------------
Q 015590          141 AGRISKAIETLFDMPSYNCWPS-VKTFNLV-------LNLLVSAKLYGEIQGIYTSAAKLGVEID---------------  197 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l-------l~~~~~~~~~~~a~~~~~~~~~~g~~~~---------------  197 (404)
                      .++.+.|.+.|.+.....  |+ ...|..+       ...+.+.++..+++..+....+  +.|+               
T Consensus        19 ~~d~~~A~~~F~~a~~~d--P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           19 PMSEARSLDLFTEITNYD--ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             CCCHHHHHHHHHHHHHhC--hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            788888888888887754  43 4577766       4555555555555555554443  2221               


Q ss_pred             -------HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--H
Q 015590          198 -------ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD--T  268 (404)
Q Consensus       198 -------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~--~  268 (404)
                             ....-.+...+...|++++|.++|+.+...+  |+....-.+...+.+.+++++|+..|+...... .|.  .
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                   1233446677788899999999998887654  443355666667888899999998887554321 111  2


Q ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 015590          269 VTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN--SASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYK  342 (404)
Q Consensus       269 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~  342 (404)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...  .|+...+.
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~  245 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAA  245 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHH
Confidence            3566777888888888888888888875432243  235556666778888888888888888875  45533333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.66  E-value=6.2e-07  Score=67.08  Aligned_cols=98  Identities=13%  Similarity=0.013  Sum_probs=53.2

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ...|..+...+...|++++|...++...+.. +.+..++..+...|...|++++|...+++..+.. +.+...|..+...
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            3455555555555666666666665555443 3344555555555555555555555555555443 3344555555555


Q ss_pred             HHHcCCHHHHHHHHHHHHHC
Q 015590          243 LCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +.+.|++++|...|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            55555555555555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.66  E-value=1.2e-06  Score=64.53  Aligned_cols=96  Identities=14%  Similarity=0.180  Sum_probs=45.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL  278 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  278 (404)
                      ..+..+...+...|++++|...|+++.+.. +.+..++..+...+.+.|++++|...|+++.+... .+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHHH
Confidence            344444555555555555555555544432 23344444555555555555555555555444321 1334444444444


Q ss_pred             HcCCCHHHHHHHHHHHhh
Q 015590          279 RKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~  296 (404)
                      ...|++++|...|+++.+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            444555555544444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.64  E-value=3.3e-07  Score=74.33  Aligned_cols=23  Identities=17%  Similarity=-0.031  Sum_probs=10.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ..+...+...|++++|.+.+++.
T Consensus       151 ~~la~~~~~~g~~~~A~~~~~~a  173 (203)
T 3gw4_A          151 RGLGDLAQQEKNLLEAQQHWLRA  173 (203)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHH
Confidence            34444444455555555444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.64  E-value=3.8e-06  Score=72.66  Aligned_cols=164  Identities=13%  Similarity=0.037  Sum_probs=94.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCc-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC---CC--HHHH
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPN-----VRTYSTLMHGLCEKGNVEEAFGLLERMESEGID---AD--TVTF  271 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~---p~--~~~~  271 (404)
                      ...+..+...|++++|.+.+....+.....+     ...+..+...+...|++++|+..|++..+....   +.  ..+|
T Consensus        79 ~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 2qfc_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            3345555666666666666655544321111     112233444555666777777777666542111   11  3366


Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHhhC-CCCCC-----hhhHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCC-CHHH
Q 015590          272 NILISGLRKQGKVEEGMKLLERMKGK-GCYPN-----SASYQEVLYGLLDKKRFPEAKELVGRMICE----RMSP-SFVS  340 (404)
Q Consensus       272 ~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~  340 (404)
                      +.+...|...|++++|...|++..+. ...|+     ..++..+...|...|++++|++.+++..+.    +... -..+
T Consensus       159 ~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~  238 (293)
T 2qfc_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            66777777777777777777766521 00111     146677777777778888888777776542    1111 1456


Q ss_pred             HHHHHHHHHcCCChHHH-HHHHHHHH
Q 015590          341 YKKLIHGLCNQKLVEDV-DWVLKKMV  365 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a-~~~~~~m~  365 (404)
                      |..+..+|...|++++| ...+++..
T Consensus       239 ~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          239 YYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            77777778888888888 66666654

>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=98.64  E-value=1.5e-06  Score=75.31  Aligned_cols=161  Identities=14%  Similarity=0.053  Sum_probs=95.7

Q ss_pred             HHHHHhhcCCHHHHHHHHhhcccCC-CCccHH----HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCC-CC----HhHHHH
Q 015590          134 IKIYGNMAGRISKAIETLFDMPSYN-CWPSVK----TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVE-ID----ACCLNI  203 (404)
Q Consensus       134 l~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~  203 (404)
                      +..+.. .|++++|..++++..+.. ..|+..    .+..+...+...+++++|...++...+.... ++    ..+++.
T Consensus        82 i~~~~~-~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           82 VIMLCK-QKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHH-TTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHH-HhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            444444 778888888887765522 112211    2333555566667788888888877764322 22    225777


Q ss_pred             HHHHHHhcCChHHHHHHHHHchh----C-CCCCc-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCCC-HHHHH
Q 015590          204 LLKGLCENGNLEAAFYVLDEFPK----Q-NCEPN-VRTYSTLMHGLCEKGNVEEAFGLLERMESE----GIDAD-TVTFN  272 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~~~~----~-~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----~~~p~-~~~~~  272 (404)
                      +...|...|++++|...|++..+    . +..+. ..+|..+...|.+.|++++|+..+++..+.    +..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            77777777887777777777653    1 11122 235666777777777777777777765432    11111 45566


Q ss_pred             HHHHHHHcCCC-HHHHHHHHHHHh
Q 015590          273 ILISGLRKQGK-VEEGMKLLERMK  295 (404)
Q Consensus       273 ~li~~~~~~g~-~~~a~~~~~~m~  295 (404)
                      .+...|.+.|+ .++|...|++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            66666666773 466666666554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.64  E-value=3.3e-07  Score=74.35  Aligned_cols=158  Identities=11%  Similarity=-0.009  Sum_probs=102.2

Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHcCCC
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE----GIDA-DTVTFNILISGLRKQGK  283 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~  283 (404)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....    +..| ...++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            3457777777744333321 1234566777777777777877777777776541    1111 23456677777888888


Q ss_pred             HHHHHHHHHHHhhC----CCCC--ChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCC----HHHHHHHHHHHHcCC
Q 015590          284 VEEGMKLLERMKGK----GCYP--NSASYQEVLYGLLDKKRFPEAKELVGRMICER-MSPS----FVSYKKLIHGLCNQK  352 (404)
Q Consensus       284 ~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~----~~~~~~li~~~~~~g  352 (404)
                      +++|...+++..+.    +-.|  ....+..+...+...|++++|.+.+++..+.. -..+    ..++..+...+...|
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            88888888776543    1111  13456777788888899999999988876431 0112    234577788899999


Q ss_pred             ChHHHHHHHHHHHHC
Q 015590          353 LVEDVDWVLKKMVQQ  367 (404)
Q Consensus       353 ~~~~a~~~~~~m~~~  367 (404)
                      ++++|...+++..+.
T Consensus       162 ~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          162 NLLEAQQHWLRARDI  176 (203)
T ss_dssp             CHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999987754

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.64  E-value=3e-06  Score=73.31  Aligned_cols=165  Identities=12%  Similarity=0.038  Sum_probs=99.5

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC-----HhHHHHHHHHHHhcCChHHHHHHHHHchhCCC---CCc--HHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID-----ACCLNILLKGLCENGNLEAAFYVLDEFPKQNC---EPN--VRT  235 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~--~~~  235 (404)
                      +...+..+...|++++|.+.+....+.....+     ...+..+...+...|++++|...+++..+...   .+.  ..+
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            33344555566666666666655554321110     01233344556666777777777766553211   111  346


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH---HC-CCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCC-Chh
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERME---SE-GIDA--DTVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYP-NSA  304 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~---~~-~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~  304 (404)
                      |+.+...|...|++++|+..|++..   +. +..+  ...++..+...|...|++++|...+++..+.    +... -..
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            7777777888888888888887765   22 1111  1246777778888888888888888776543    1111 146


Q ss_pred             hHHHHHHHHHhcCChhHH-HHHHHHHH
Q 015590          305 SYQEVLYGLLDKKRFPEA-KELVGRMI  330 (404)
Q Consensus       305 ~~~~li~~~~~~g~~~~a-~~~~~~~~  330 (404)
                      +|..+...|.+.|+.++| ...+++..
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            677888888888888888 67677654

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.62  E-value=4.7e-07  Score=69.80  Aligned_cols=97  Identities=5%  Similarity=-0.181  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+..+...+.+.|++++|+..|+...+.. |.+...|..+..+|...|++++|...|++..+.. |.+...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            456666777777777777777777777664 4566677777777777777777777777776654 44566777777777


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+.|++++|...|++..+.
T Consensus       115 ~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            7777777777777777665

>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=98.61  E-value=2.6e-07  Score=79.61  Aligned_cols=194  Identities=12%  Similarity=0.020  Sum_probs=102.2

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH-HHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY-NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNL  168 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  168 (404)
                      +...+..+...+.+.|++++|...++......   |.+...+ ++...+.. .|++++|+..+++..+.. +.+...+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~~-~~~~~~A~~~~~~al~~~-p~~~~~~~~   77 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN---PLVAVYYTNRALCYLK-MQQPEQALADCRRALELD-GQSVKAHFF   77 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---SCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---CccHHHHHHHHHHHHH-hcCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            45566667777777788888888887776543   3333333 33344443 778888888887777654 234557777


Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      +..++...|++++|...|+...+.. +.+...+...+....+..   ++... ........+.+......+.. + ..|+
T Consensus        78 lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~i~~~l~~-l-~~~~  150 (281)
T 2c2l_A           78 LGQCQLEMESYDEAIANLQRAYSLA-KEQRLNFGDDIPSALRIA---KKKRW-NSIEERRIHQESELHSYLTR-L-IAAE  150 (281)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH-HHTTCCCCSHHHHHHHHH---HHHHH-HHHHHTCCCCCCHHHHHHHH-H-HHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHHH---HHHHH-HHHHHHHHhhhHHHHHHHHH-H-HHHH
Confidence            7777788888888888887776542 111111111111111111   11111 11111222333333333322 2 2567


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHcC-CCHHHHHHHHHHHhhC
Q 015590          249 VEEAFGLLERMESEGIDADTVT-FNILISGLRKQ-GKVEEGMKLLERMKGK  297 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~-~~~li~~~~~~-g~~~~a~~~~~~m~~~  297 (404)
                      .++|++.++...+.  .|+... ...+-..+.+. +.+++|.++|....+.
T Consensus       151 ~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          151 RERELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            77777777666554  333322 22333333333 5567777777766553

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.61  E-value=1.6e-06  Score=66.80  Aligned_cols=96  Identities=13%  Similarity=-0.056  Sum_probs=49.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      .+..+...+.+.|++++|...|+...+.. |.+...|..+..+|...|++++|+..|++..+.... +...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHH
Confidence            44445555555555555555555555443 344555555555555555555555555555444322 3444555555555


Q ss_pred             cCCCHHHHHHHHHHHhhC
Q 015590          280 KQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~  297 (404)
                      ..|++++|...|++..+.
T Consensus       116 ~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          116 RLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            555555555555555544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.60  E-value=1.1e-06  Score=65.38  Aligned_cols=117  Identities=14%  Similarity=0.013  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL  313 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  313 (404)
                      ..+..+...+...|++++|...|++....... +...+..+...+...|++++|...+++..+.. +.+...+..+...+
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            34444444455555555555555554433211 33444444555555555555555555544432 11234445555555


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 015590          314 LDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKL  353 (404)
Q Consensus       314 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~  353 (404)
                      ...|++++|.+.+++..+.. +.+...+..+..++...|+
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            55555555555555554431 2234444444444444443

>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=98.59  E-value=4.9e-07  Score=69.56  Aligned_cols=91  Identities=13%  Similarity=-0.014  Sum_probs=36.0

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK  246 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  246 (404)
                      ..+...+.+.|++++|...|+...+.. +.+...|..+..+|...|++++|...|+...+.. +.+...|..+..+|...
T Consensus        25 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~  102 (148)
T 2vgx_A           25 YSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLLQX  102 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHc
Confidence            333334444444444444444443332 2233333444444444444444444444433332 22333333344444444


Q ss_pred             CCHHHHHHHHHHH
Q 015590          247 GNVEEAFGLLERM  259 (404)
Q Consensus       247 ~~~~~A~~~~~~m  259 (404)
                      |++++|...|++.
T Consensus       103 g~~~~A~~~~~~a  115 (148)
T 2vgx_A          103 GELAEAESGLFLA  115 (148)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            4444444444433

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.59  E-value=3.1e-07  Score=72.94  Aligned_cols=120  Identities=13%  Similarity=0.075  Sum_probs=82.2

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHH-HHhcCCh--HHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKG-LCENGNL--EAA  217 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~-~~~~g~~--~~a  217 (404)
                      .|++++|...|++..+.. +.+...|..+...+...|++++|...|+...+.. +.+...+..+..+ |...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            566777777776665533 2345677777777777788888888877777664 4456666777777 6677777  888


Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEG  263 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  263 (404)
                      ...|+...+.. +.+...+..+...|...|++++|...|++..+..
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            88887777654 4456677777777888888888888888777653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.59  E-value=1.4e-06  Score=65.03  Aligned_cols=97  Identities=12%  Similarity=0.029  Sum_probs=44.5

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISG  277 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  277 (404)
                      ...+..+...+...|++++|...|++..+.. +.+...|..+...|...|++++|...|++..+.... +...+..+...
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHHHH
Confidence            3344444445555555555555555544432 233444444444444555555555555444443211 33344444444


Q ss_pred             HHcCCCHHHHHHHHHHHhh
Q 015590          278 LRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       278 ~~~~g~~~~a~~~~~~m~~  296 (404)
                      +...|++++|...|++..+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            4444444444444444443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.59  E-value=2.3e-05  Score=73.00  Aligned_cols=227  Identities=9%  Similarity=-0.038  Sum_probs=148.8

Q ss_pred             HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHH-HHHHHH
Q 015590          145 SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAA-FYVLDE  223 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~  223 (404)
                      +.+..+|++..... +.+...|...+..+.+.|+.+.|..+|++....  |.+...+.    .|+...+.++. ..+.+.
T Consensus       196 ~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~~~~~~~l~~~  268 (493)
T 2uy1_A          196 SRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDEEAVYGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcchhHHHHHHHHH
Confidence            45667777776632 345667888888888999999999999999988  44443333    23332222222 112221


Q ss_pred             chhCC-----C---CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-CCCHHHHHHHHHHH
Q 015590          224 FPKQN-----C---EPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK-QGKVEEGMKLLERM  294 (404)
Q Consensus       224 ~~~~~-----~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m  294 (404)
                      .....     .   ......|...+....+.++.+.|..+|++. .. ...+...|......-.. .++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            11000     0   112356777788887888999999999999 32 12344455432222222 23699999999998


Q ss_pred             hhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC--C---C
Q 015590          295 KGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ--G---F  369 (404)
Q Consensus       295 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~---~  369 (404)
                      .+.- .-++..|...++...+.|+.+.|..+|+.+.     .....|...++--...|+.+.+..++++..+.  +   -
T Consensus       347 l~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~~~~~~~~  420 (493)
T 2uy1_A          347 LLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMDAIKADAIL  420 (493)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTCCB
T ss_pred             HHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhcccccC
Confidence            8762 1134556777887788999999999999983     35778888888778889999999999887742  1   1


Q ss_pred             CCC------------HHhHHHHHHhhccC
Q 015590          370 VPR------------MGMWREIVGCVTFG  386 (404)
Q Consensus       370 ~p~------------~~~~~~ll~~~~~~  386 (404)
                      .|-            ..++..++..|...
T Consensus       421 ~~~~~~~~~~~fe~~~g~l~~~~~~~~~~  449 (493)
T 2uy1_A          421 PPLPPREHNVQMEGILGRYHCFLDSFNFL  449 (493)
T ss_dssp             CCCCCC--CCCCCHHHHHHHHHHHHHCBT
T ss_pred             CcccccccHHHHHHHhhhHHHHHHHhhhh
Confidence            111            25788888888543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.58  E-value=1.6e-06  Score=64.56  Aligned_cols=94  Identities=12%  Similarity=-0.012  Sum_probs=43.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRK  280 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  280 (404)
                      +......|.+.|++++|...|++..+.. +.+..+|..+..+|.+.|++++|+..|++..+.... +...|..+..++..
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~   93 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHHHH
Confidence            3444444555555555555555444433 334444444445555555555555555444443221 33344444444444


Q ss_pred             CCCHHHHHHHHHHHhh
Q 015590          281 QGKVEEGMKLLERMKG  296 (404)
Q Consensus       281 ~g~~~~a~~~~~~m~~  296 (404)
                      .|++++|.+.|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            4444444444444444

>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=98.56  E-value=1.8e-06  Score=76.41  Aligned_cols=149  Identities=11%  Similarity=-0.073  Sum_probs=89.0

Q ss_pred             CCHHHHHHHHhhcccCCCCc-cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC--------------HhHHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWP-SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID--------------ACCLNILLK  206 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--------------~~~~~~li~  206 (404)
                      +++++|.+.|+...+..  | +...|..+...+.+.|++++|...|++..+......              ..+|..+..
T Consensus       127 ~~~~~A~~~~~~a~~~~--p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~  204 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK--LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAM  204 (336)
T ss_dssp             EEEECCCCGGGCCHHHH--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHH
Confidence            34445555554443321  3 345677777788888888888888888777642111              356666666


Q ss_pred             HHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          207 GLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                      +|.+.|++++|...++...+.. +.+..+|..+..+|...|++++|...|++..+.... +...+..+...+.+.|+.++
T Consensus       205 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          205 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666666554 445566666666666666666666666666554322 44555556666666666665


Q ss_pred             H-HHHHHHH
Q 015590          287 G-MKLLERM  294 (404)
Q Consensus       287 a-~~~~~~m  294 (404)
                      | ...|+.|
T Consensus       283 a~~~~~~~~  291 (336)
T 1p5q_A          283 REKKLYANM  291 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            5 3344444

>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=98.55  E-value=1.4e-07  Score=83.50  Aligned_cols=148  Identities=11%  Similarity=0.013  Sum_probs=114.8

Q ss_pred             CCchHHHHHHHHHHhcccCCCChHHHH-HHHHHHHhhcCCHHHHHHHHhhcccCCCCcc----------------HHHHH
Q 015590          105 KRFDAIEDIMQRIKVEKLCRFSDGFFY-NVIKIYGNMAGRISKAIETLFDMPSYNCWPS----------------VKTFN  167 (404)
Q Consensus       105 ~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~----------------~~~~~  167 (404)
                      +++++|...++......   +.....+ ++-..+.. .|++++|+..|++..+..  |+                ...|.
T Consensus       127 ~~~~~A~~~~~~a~~~~---p~~a~~~~~~g~~~~~-~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~  200 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEK---LEQSTIVKERGTVYFK-EGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHL  200 (336)
T ss_dssp             EEEECCCCGGGCCHHHH---HHHHHHHHHHHHHHHH-HTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHH---HHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHH
Confidence            44555655555433222   2233333 34444444 899999999999987754  43                47899


Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG  247 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  247 (404)
                      .+..++.+.|++++|+..++...+.. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+...+.+.|
T Consensus       201 nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~  278 (336)
T 1p5q_A          201 NLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIR  278 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999886 6678899999999999999999999999998875 567788999999999999


Q ss_pred             CHHHH-HHHHHHHH
Q 015590          248 NVEEA-FGLLERME  260 (404)
Q Consensus       248 ~~~~A-~~~~~~m~  260 (404)
                      +.++| ...|+.|.
T Consensus       279 ~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          279 RQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99988 44666664

>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=98.55  E-value=4.9e-07  Score=69.57  Aligned_cols=99  Identities=15%  Similarity=0.003  Sum_probs=66.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIS  276 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~  276 (404)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+..+|...|++++|+..|++....... +...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHH
Confidence            44455666667777777777777777766554 456666777777777777777777777776655332 4556666677


Q ss_pred             HHHcCCCHHHHHHHHHHHhhC
Q 015590          277 GLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      +|...|++++|...|++..+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777776654

>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=98.53  E-value=5.4e-06  Score=60.17  Aligned_cols=95  Identities=16%  Similarity=0.013  Sum_probs=45.3

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLC  244 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  244 (404)
                      .+..+...+...|++++|...++...+.. +.+...+..+...|...|++++|...+++..+.. +.+...+..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            44444444555555555555555554432 2334444444455555555555555555444432 223444444444455


Q ss_pred             HcCCHHHHHHHHHHHHH
Q 015590          245 EKGNVEEAFGLLERMES  261 (404)
Q Consensus       245 ~~~~~~~A~~~~~~m~~  261 (404)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555544443

>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=98.52  E-value=3.1e-06  Score=62.85  Aligned_cols=97  Identities=13%  Similarity=0.040  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..|......+.+.|++++|+..|++..+.. +.+...+..+..+|.+.|++++|...|+...+.. +.+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            455556666666666777776666666654 4455666666666666666666666666666554 44555666666666


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|++++|...|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            6666666666666666543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.49  E-value=2.3e-06  Score=65.15  Aligned_cols=97  Identities=13%  Similarity=-0.045  Sum_probs=62.4

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+..+...+.+.|++++|...|+...+.. +.+...|..+..+|.+.|++++|...|+...+.. +.+...|..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            345555666666777777777777666654 4456666666666777777777777776666554 44555666666666


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...|++++|...|++..+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6677777777666666543

>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=98.46  E-value=4.8e-06  Score=61.77  Aligned_cols=95  Identities=12%  Similarity=0.056  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      .+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++..+.... +...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHH
Confidence            34444455555555555555555554443 334445555555555555555555555555443222 3344444455555


Q ss_pred             cCCCHHHHHHHHHHHhh
Q 015590          280 KQGKVEEGMKLLERMKG  296 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~  296 (404)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555554443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.46  E-value=2.2e-06  Score=61.73  Aligned_cols=95  Identities=19%  Similarity=0.065  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC--cHHHHHHHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP--NVRTYSTLMHG  242 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~  242 (404)
                      .|..+...+...|++++|...++...+.. +.+...+..+...+...|++++|...|++..+.. +.  +...|..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHH
Confidence            33344444444444444444444444432 2233344444444444444444444444444332 22  23344444444


Q ss_pred             HHHc-CCHHHHHHHHHHHHH
Q 015590          243 LCEK-GNVEEAFGLLERMES  261 (404)
Q Consensus       243 ~~~~-~~~~~A~~~~~~m~~  261 (404)
                      +.+. |++++|.+.|++...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHhCCHHHHHHHHHHHhh
Confidence            4444 444444444444433

>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=98.44  E-value=5.7e-07  Score=72.93  Aligned_cols=155  Identities=10%  Similarity=-0.060  Sum_probs=84.8

Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---------------HHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD---------------TVTFN  272 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~---------------~~~~~  272 (404)
                      ....|+++++.+.|+.-.+.. ......+..+...+.+.|++++|+..|++.......-.               ...|.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             --------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            333455555554444322211 12334455566666667777777777776665422100               25666


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC
Q 015590          273 ILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQK  352 (404)
Q Consensus       273 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g  352 (404)
                      .+..+|...|++++|...+++..+.. +.+...+..+..++...|++++|.+.|++..+.. +-+...+..+..++...+
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~  170 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLK  170 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHH
Confidence            77777777788888888777777653 2355677777777778888888888887777642 335556666666666666


Q ss_pred             ChHHHH-HHHHHHH
Q 015590          353 LVEDVD-WVLKKMV  365 (404)
Q Consensus       353 ~~~~a~-~~~~~m~  365 (404)
                      +.+++. ..+..|.
T Consensus       171 ~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          171 EARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHC----------
T ss_pred             HHHHHHHHHHHHHh
Confidence            665555 4444444

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.44  E-value=1.4e-06  Score=66.31  Aligned_cols=97  Identities=11%  Similarity=-0.028  Sum_probs=55.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL  278 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  278 (404)
                      ..+..+...+.+.|++++|...|+.....+ +.+...|..+..+|.+.|++++|+..|++....... +...+..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHH
Confidence            344445555666666666666666655543 445555666666666666666666666665554322 344555555666


Q ss_pred             HcCCCHHHHHHHHHHHhhC
Q 015590          279 RKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|++++|...|+...+.
T Consensus        97 ~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666655544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.43  E-value=1.2e-05  Score=58.19  Aligned_cols=97  Identities=18%  Similarity=0.077  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGL  278 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  278 (404)
                      ..+..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...+++..+.... +...+..+...+
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            344455555555666666666665555443 334555555555555556666666555555544221 344455555555


Q ss_pred             HcCCCHHHHHHHHHHHhhC
Q 015590          279 RKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|++++|...+++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            5555555555555555544

>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=98.41  E-value=6.8e-05  Score=65.25  Aligned_cols=229  Identities=10%  Similarity=0.048  Sum_probs=159.0

Q ss_pred             cCCH-HHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcCc----------HhHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 015590          141 AGRI-SKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAKL----------YGEIQGIYTSAAKLGVEIDACCLNILLKGL  208 (404)
Q Consensus       141 ~g~~-~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  208 (404)
                      .|.+ ++|+++++.+...+  |+ ..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-.-.+
T Consensus        42 ~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           42 AGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             TTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            4555 48999999998865  54 4467765555444443          678888888888775 66888888888888


Q ss_pred             HhcCC--hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC----
Q 015590          209 CENGN--LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN-VEEAFGLLERMESEGIDADTVTFNILISGLRKQ----  281 (404)
Q Consensus       209 ~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~----  281 (404)
                      .+.|+  ++++..+++.+.+.. +.|..+|+.-...+...|. ++++++.++++.+..+. |...|+.....+.+.    
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCCC
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhcc
Confidence            88884  889999999998876 7788899888888888888 58999999999887665 777887766655544    


Q ss_pred             ----------CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc-----------CChhHHHHHHHHHHHCCCCCCH-H
Q 015590          282 ----------GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK-----------KRFPEAKELVGRMICERMSPSF-V  339 (404)
Q Consensus       282 ----------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~~~~~~~~p~~-~  339 (404)
                                +.++++++.+....... +-|...|+-+-..+.+.           +.++++++.++++.+.  .||. -
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~~w  273 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPENKW  273 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTCHH
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Ccccch
Confidence                      45778888888887763 22556666554444444           3467888888888875  4543 2


Q ss_pred             HHHHHH---HHHHcCCChHHHHHHHHHHHHCCCCCCHH-hHHHH
Q 015590          340 SYKKLI---HGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MWREI  379 (404)
Q Consensus       340 ~~~~li---~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~l  379 (404)
                      .+.+++   .+....|..+++...+.++.+  +.|-.. -|.-+
T Consensus       274 ~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp~r~~~y~d~  315 (331)
T 3dss_A          274 CLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYLDDL  315 (331)
T ss_dssp             HHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCGGGHHHHHHH
T ss_pred             HHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCcchhhHHHHH
Confidence            222222   122245677788888888873  445443 34443

>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=98.41  E-value=7.7e-06  Score=61.49  Aligned_cols=98  Identities=18%  Similarity=0.059  Sum_probs=54.3

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +...|..+...+...|++++|...|+...+.. +.+...+..+..+|...|++++|...++...+.+ +.+...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            34455555555566666666666666555543 3345555555555555666666665555555443 334455555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHH
Q 015590          242 GLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~  261 (404)
                      .|...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555543

>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=98.40  E-value=5.7e-06  Score=61.62  Aligned_cols=58  Identities=12%  Similarity=0.009  Sum_probs=24.4

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      +..+...+.+.|++++|++.|++.++.. |.+...|..+..+|.+.|++++|...++..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~a   68 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKA   68 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHH
Confidence            3344444444444444444444444332 223334444444444444444444444433

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.39  E-value=0.00021  Score=62.24  Aligned_cols=221  Identities=10%  Similarity=-0.010  Sum_probs=144.0

Q ss_pred             HhcCCch-HHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcC----------CHHHHHHHHhhcccCCCCccHHHHHHHH
Q 015590          102 AQAKRFD-AIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG----------RISKAIETLFDMPSYNCWPSVKTFNLVL  170 (404)
Q Consensus       102 ~~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----------~~~~A~~~~~~m~~~~~~p~~~~~~~ll  170 (404)
                      .+.|.++ +|.++.+.+....   |...+.|+.-.......+          .+++++.+++.+.... +-+..+|+.-.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~n---P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~  115 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGAN---PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRC  115 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTC---TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC---chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3455554 6777777776544   445555543222222111          1567788888777654 23556777766


Q ss_pred             HHHHhcC--cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC-hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc-
Q 015590          171 NLLVSAK--LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN-LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK-  246 (404)
Q Consensus       171 ~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  246 (404)
                      -.+.+.+  .+++++.+++.+.+.. +-|..+|+.-.-.....|. ++++.+.++.+.+.. +.|..+|+.....+.+. 
T Consensus       116 wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          116 WLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHS
T ss_pred             HHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhh
Confidence            6666666  4788888888888775 5677788777777777777 578888888887766 66777787766665554 


Q ss_pred             -------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC-----------CCHHHHHHHHHHHhhCCCCCC
Q 015590          247 -------------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ-----------GKVEEGMKLLERMKGKGCYPN  302 (404)
Q Consensus       247 -------------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~  302 (404)
                                   +.++++++.+.+.....+. |...|+-+-..+.+.           +.++++++.++++.+.  .||
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd  270 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPE  270 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTT
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Ccc
Confidence                         4477888888888776544 677776554444444           4578888888888877  455


Q ss_pred             hhhHHHHHHH-----HHhcCChhHHHHHHHHHHHC
Q 015590          303 SASYQEVLYG-----LLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       303 ~~~~~~li~~-----~~~~g~~~~a~~~~~~~~~~  332 (404)
                      . .|..+-.+     ....|..+++...+.++.+-
T Consensus       271 ~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          271 N-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             C-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             c-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            3 34322222     12346677888888888763

>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=98.39  E-value=2.9e-06  Score=63.00  Aligned_cols=98  Identities=10%  Similarity=0.091  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC--CCc----HHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC--EPN----VRTYS  237 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~----~~~~~  237 (404)
                      ..|..+...+...|++++|...++...+.. +.+...+..+...|...|++++|...++...+...  .++    ..+|.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            344555555555555666655555555543 33445555555555555555555555555443310  011    34445


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+...|...|++++|...|++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            5555555555555555555555443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.38  E-value=9.1e-06  Score=63.47  Aligned_cols=99  Identities=14%  Similarity=0.081  Sum_probs=73.9

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +...|..+...+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|...|+...+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44567777777778888888888888777764 4467777777778888888888888887777664 455677777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHHC
Q 015590          242 GLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       242 ~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +|...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            788888888888888777654

>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=98.38  E-value=6.4e-06  Score=66.62  Aligned_cols=120  Identities=17%  Similarity=-0.005  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC----------------HhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID----------------ACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      ..+..+...+...|++++|...|++..+.. +.+                ..++..+..+|.+.|++++|...++...+.
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            345555566666666666666666666542 111                144555555555555555555555555444


Q ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          228 NCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       228 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                      . +.+...|..+..+|...|++++|...|++..+.... +...+..+...+...++.++
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~  174 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARK  174 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHH
Confidence            3 334455555555555555555555555555443221 33344444444444443333

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.37  E-value=6.2e-06  Score=59.25  Aligned_cols=99  Identities=14%  Similarity=0.022  Sum_probs=51.1

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID-ADTVTFNILIS  276 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~~~~~~~li~  276 (404)
                      ...+..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...|++..+.... .+...+..+..
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            3344455555555556666655555555443 334445555555555555555555555555544211 02444555555


Q ss_pred             HHHcC-CCHHHHHHHHHHHhhC
Q 015590          277 GLRKQ-GKVEEGMKLLERMKGK  297 (404)
Q Consensus       277 ~~~~~-g~~~~a~~~~~~m~~~  297 (404)
                      .+... |++++|.+.+++....
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhhc
Confidence            55555 5555555555555544

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.37  E-value=3e-06  Score=62.90  Aligned_cols=98  Identities=13%  Similarity=0.143  Sum_probs=52.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHHHH
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI--DAD----TVTFN  272 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~--~p~----~~~~~  272 (404)
                      ..+..+...+...|++++|...|+...+.. +.+...+..+...|...|++++|...|++......  .++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            344555556666666666666666655543 34455555666666666666666666665544321  111    33444


Q ss_pred             HHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          273 ILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       273 ~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .+...+...|++++|...|++..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            4555555555555555555555543

>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=98.36  E-value=9.3e-06  Score=60.44  Aligned_cols=105  Identities=14%  Similarity=0.159  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI--DAD----TVTFNI  273 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~--~p~----~~~~~~  273 (404)
                      .+..+...+.+.|++++|...|++..+.. |.+...|+.+..+|.+.|++++|+..|++..+...  .++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44556666666666666666666665554 44556666666666666666666666666544311  111    124555


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHH
Q 015590          274 LISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQ  307 (404)
Q Consensus       274 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  307 (404)
                      +...+...|++++|.+.|++....  .||+.+..
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            666666666666666666666553  34444433

>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=98.36  E-value=1.2e-05  Score=60.47  Aligned_cols=98  Identities=13%  Similarity=-0.041  Sum_probs=51.5

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIS  276 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~  276 (404)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+...+...|++++|...|++..+.... +...|..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHH
Confidence            34455555555555555555555555554443 334455555555555555555555555555544322 3444555555


Q ss_pred             HHHcCCCHHHHHHHHHHHhh
Q 015590          277 GLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~  296 (404)
                      .+...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            55555555555555555443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.35  E-value=2.2e-05  Score=59.68  Aligned_cols=98  Identities=19%  Similarity=0.095  Sum_probs=60.9

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC----HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID----ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYS  237 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  237 (404)
                      +...+..+...+...|++++|...|+...+..  |+    ...+..+...|...|++++|...++...+.. +.+...|.
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            34556666666666677777777776666542  33    4556666666666666666666666665543 33455666


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+...|...|++++|...|++..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6666666666666666666666554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.35  E-value=8.9e-06  Score=63.52  Aligned_cols=99  Identities=10%  Similarity=-0.072  Sum_probs=75.6

Q ss_pred             CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 015590          197 DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILIS  276 (404)
Q Consensus       197 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~  276 (404)
                      +...+..+...|.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++..+.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            45567777778888888888888888877664 456777888888888888888888888887766433 5667777888


Q ss_pred             HHHcCCCHHHHHHHHHHHhhC
Q 015590          277 GLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .|...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888877765

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.32  E-value=3.9e-05  Score=70.16  Aligned_cols=199  Identities=9%  Similarity=-0.054  Sum_probs=143.6

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCC---------------HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCC-
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPN---------------EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFS-  126 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~---------------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~-  126 (404)
                      +.+...|++++|++.|..+++...-..+               ...+..+...|...|++++|.+.+..+......... 
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            4567789999999999999875432222               124778899999999999999999887543211111 


Q ss_pred             --hHHHHHHHHHHHhhcCCHHHHHHHHhhccc----CCCCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-----
Q 015590          127 --DGFFYNVIKIYGNMAGRISKAIETLFDMPS----YNCWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-----  194 (404)
Q Consensus       127 --~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~----~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-----  194 (404)
                        .....+.+..+....|++++|.+++++...    .+..+. ..++..+...+...|++++|..+++++...-.     
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence              123455666666667999999999887643    222222 45788899999999999999999998875421     


Q ss_pred             CCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCCCc--HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          195 EIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCEPN--VRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       195 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      +....++..++..|...|++++|...++.....    +.++.  ...+..+...+...|++++|...|.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            122457888999999999999999999876532    21222  34566777778889999999988877653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.26  E-value=6.4e-05  Score=68.67  Aligned_cols=190  Identities=8%  Similarity=-0.002  Sum_probs=92.3

Q ss_pred             cCCHHHHHHHHhhcccCCCCc-c---------------HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC-CCCH----h
Q 015590          141 AGRISKAIETLFDMPSYNCWP-S---------------VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV-EIDA----C  199 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p-~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~----~  199 (404)
                      .|++++|++.|.++.+..... +               ...+..+...|...|++++|.+.+..+.+.-- .++.    .
T Consensus        17 ~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   96 (434)
T 4b4t_Q           17 EKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKV   96 (434)
T ss_dssp             HTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHH
Confidence            677777777777665532111 0               01245566666666666666666665544210 1111    1


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchh----CCCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CC--CC-CHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPK----QNCEP-NVRTYSTLMHGLCEKGNVEEAFGLLERMESE--GI--DA-DTV  269 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~--~~--~p-~~~  269 (404)
                      +.+.+-..+...|+++.|..++.....    .+..+ -..++..+...|...|++++|..+++++...  +.  .+ ...
T Consensus        97 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~  176 (434)
T 4b4t_Q           97 LKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVD  176 (434)
T ss_dssp             HHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHH
Confidence            222222333344566666666655432    11111 2334555666666666666666666655432  11  11 123


Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCCC--hhhHHHHHHHHHhcCChhHHHHHHHHHH
Q 015590          270 TFNILISGLRKQGKVEEGMKLLERMKGK----GCYPN--SASYQEVLYGLLDKKRFPEAKELVGRMI  330 (404)
Q Consensus       270 ~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  330 (404)
                      ++..++..|...|++++|..++++....    +..+.  ...+..+...+...|++++|...|.+..
T Consensus       177 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          177 VHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            4555556666666666666666554432    11111  1233444444455566666666555554

>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=1.1e-05  Score=59.53  Aligned_cols=94  Identities=11%  Similarity=-0.048  Sum_probs=52.1

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      +..+...+.+.|++++|...++...+.. +.+...+..+..++...|++++|...|++..+.. +.+...+..+...|.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344445555566666666666555543 3345555555555666666666666665555543 3344555555555556


Q ss_pred             cCCHHHHHHHHHHHHH
Q 015590          246 KGNVEEAFGLLERMES  261 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~  261 (404)
                      .|++++|+..|++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666555544

>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=1.1e-05  Score=59.48  Aligned_cols=94  Identities=11%  Similarity=-0.004  Sum_probs=49.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ..+...+.+.|++++|...|+...+.. +.+...|..+..++...|++++|+..|++..+.... +...+..+...+...
T Consensus        21 ~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           21 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   98 (121)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHc
Confidence            334445555556666655555555443 334555555555555555555555555555544322 344555555555555


Q ss_pred             CCHHHHHHHHHHHhhC
Q 015590          282 GKVEEGMKLLERMKGK  297 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~  297 (404)
                      |++++|...|++..+.
T Consensus        99 g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           99 HNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHHHh
Confidence            5555555555555543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.23  E-value=5.9e-05  Score=57.21  Aligned_cols=96  Identities=11%  Similarity=0.016  Sum_probs=45.9

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN----VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNI  273 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~  273 (404)
                      ...+..+...+...|++++|...|++..+..  |+    ...|..+...|...|++++|+..+++..+.... +...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHH
Confidence            3444455555555555555555555554432  22    344444455555555555555555554443211 3334444


Q ss_pred             HHHHHHcCCCHHHHHHHHHHHhh
Q 015590          274 LISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       274 li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      +...+...|++++|...|++..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444444555555555544443

>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=98.22  E-value=1.2e-05  Score=74.56  Aligned_cols=114  Identities=15%  Similarity=0.019  Sum_probs=55.1

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|++.|++..+.. +.+...|..+..++.+.|++++|++.+++..+.. +.+..++..+..+|.+.|++++|.+.
T Consensus        19 ~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~~   96 (477)
T 1wao_1           19 AKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRD   96 (477)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            455555555555554432 1124455555555555555555555555555543 33445555555555555555555555


Q ss_pred             HHHchhCCCCCcHHHHHHHHHH--HHHcCCHHHHHHHHH
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHG--LCEKGNVEEAFGLLE  257 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~--~~~~~~~~~A~~~~~  257 (404)
                      |++..+.. +.+...+..+..+  +.+.|++++|+..++
T Consensus        97 ~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           97 YETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            55554432 2223333333333  455555555555554

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.21  E-value=7.9e-06  Score=63.07  Aligned_cols=132  Identities=10%  Similarity=-0.018  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHcCCCHHHHHHHHHHHhhC----CCCC-Chh
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGID-AD----TVTFNILISGLRKQGKVEEGMKLLERMKGK----GCYP-NSA  304 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~  304 (404)
                      ++..+...|...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.    +..+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444445555555555555555544322100 01    124455555556666666666666554432    1000 123


Q ss_pred             hHHHHHHHHHhcCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          305 SYQEVLYGLLDKKRFPEAKELVGRMICE----RMSP-SFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       305 ~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .+..+...+...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            4555666666777777777777665532    1111 124556666777777888888877777654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.16  E-value=0.0001  Score=54.44  Aligned_cols=91  Identities=13%  Similarity=0.073  Sum_probs=42.0

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCH---hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc---HHHHHHHHHHH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDA---CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN---VRTYSTLMHGL  243 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~  243 (404)
                      ...+...|++++|...|+.+.+.. +.+.   ..+..+..+|.+.|++++|...|+...+.. +.+   ..++..+..++
T Consensus         9 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            9 AFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHH
Confidence            334444555555555555554432 1112   244444455555555555555555544432 112   33344444555


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+.|++++|...|+++.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            5555555555555554443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.16  E-value=1.6e-05  Score=73.80  Aligned_cols=124  Identities=15%  Similarity=0.018  Sum_probs=89.5

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      +..+...+.+.|++++|.+.|++..+.. +.+..++..+..+|.+.|++++|...+++..+.. +.+..+|..+..+|.+
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344455677888888888888888774 4567888888888888888888888888888775 5567788888888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHcCCCHHHHHHHHH
Q 015590          246 KGNVEEAFGLLERMESEGIDADTVTFNILISG--LRKQGKVEEGMKLLE  292 (404)
Q Consensus       246 ~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~a~~~~~  292 (404)
                      .|++++|+..|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        87 ~g~~~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             cCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            88888888888888765332 33445445444  777788888888877

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.16  E-value=1.7e-05  Score=61.06  Aligned_cols=95  Identities=12%  Similarity=-0.041  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCC-CC----HhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCCC-cHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVE-ID----ACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCEP-NVR  234 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~  234 (404)
                      ++..+...+...|++++|...+++..+.... ++    ..++..+...|...|++++|...+++..+.    +-++ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4555555566666666666666655433100 01    124555555556666666666655554321    1000 123


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      ++..+...+...|++++|...+++.
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a  115 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKH  115 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4444555555555555555555544

>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=98.15  E-value=2.5e-05  Score=72.08  Aligned_cols=120  Identities=11%  Similarity=-0.029  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCC---------------HhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEID---------------ACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---------------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      ..|..+...+.+.|++++|...|++..+.. +.+               ..+|..+..+|.+.|++++|...++...+..
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            456666777777777777777777776642 111               2444444555555555555555555444433


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                       +.+..+|..+..+|...|++++|+..|++..+.... +...+..+...+.+.++.++
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~  403 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNE  403 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHH
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHH
Confidence             334444444445555555555555555544443211 22334444444444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.13  E-value=7.3e-05  Score=55.30  Aligned_cols=93  Identities=16%  Similarity=0.070  Sum_probs=44.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHchhCCCCCcH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHH
Q 015590          204 LLKGLCENGNLEAAFYVLDEFPKQNCEPNV---RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDAD--TVTFNILISGL  278 (404)
Q Consensus       204 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~  278 (404)
                      +...+...|++++|...|+...+.. +.+.   ..+..+...+.+.|++++|...|++..+......  ...+..+..++
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            3444555555555555555554432 1122   2444455555555555555555555544321100  23344444455


Q ss_pred             HcCCCHHHHHHHHHHHhhC
Q 015590          279 RKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...|++++|...|+++.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            5555555555555555443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.07  E-value=5e-05  Score=67.94  Aligned_cols=96  Identities=10%  Similarity=0.072  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcC---------------CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCC
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLG---------------VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNC  229 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g---------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  229 (404)
                      .|..+...+.+.|++++|++.|++..+.-               -+.+..+|..+..+|.+.|++++|...+++..+.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            46666777778888888888887776520               01122334444444444444444444444444332 


Q ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          230 EPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      +.+...|..+..+|...|++++|+..|++..+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~  335 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  335 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            22333444444444444444444444444433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.06  E-value=1.2e-05  Score=58.84  Aligned_cols=83  Identities=22%  Similarity=0.061  Sum_probs=34.3

Q ss_pred             CcHhHHHHHHHHHHHcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHH
Q 015590          177 KLYGEIQGIYTSAAKLG--VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFG  254 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  254 (404)
                      |++++|+..|++..+.+  -+.+..++..+..+|...|++++|...|++..+.. +.+...+..+..++.+.|++++|+.
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            34444444444444332  11223334444444444444444444444444332 2333444444444444444444444


Q ss_pred             HHHHHH
Q 015590          255 LLERME  260 (404)
Q Consensus       255 ~~~~m~  260 (404)
                      .|++..
T Consensus        83 ~~~~al   88 (117)
T 3k9i_A           83 LLLKII   88 (117)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.05  E-value=7.2e-05  Score=58.09  Aligned_cols=98  Identities=17%  Similarity=0.060  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHc-------CC----------CCCHhHHHHHHHHHHhcCChHHHHHHHHHchh
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKL-------GV----------EIDACCLNILLKGLCENGNLEAAFYVLDEFPK  226 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-------g~----------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  226 (404)
                      ..+......+.+.|++++|+..|....+.       .-          +.+..+|..+..+|.+.|++++|...++...+
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            45556666666777777777777666543       00          11224455555555555666666555555554


Q ss_pred             CCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          227 QNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       227 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .. +.+...|..+..+|...|++++|...|++..+.
T Consensus        92 ~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           92 RE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            43 344555555555555566666665555555544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.03  E-value=1e-05  Score=59.13  Aligned_cols=86  Identities=15%  Similarity=0.078  Sum_probs=51.5

Q ss_pred             cCChHHHHHHHHHchhCC--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQN--CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGM  288 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  288 (404)
                      .|++++|...|++..+.+  -+.+...|..+...|.+.|++++|+..|++..+.... +...+..+..++...|++++|.
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            466667777777666543  1234455666666677777777777777766655433 4556666666666677777777


Q ss_pred             HHHHHHhhC
Q 015590          289 KLLERMKGK  297 (404)
Q Consensus       289 ~~~~~m~~~  297 (404)
                      ..|++....
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            766666554

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.00  E-value=0.0001  Score=57.18  Aligned_cols=99  Identities=11%  Similarity=0.033  Sum_probs=60.4

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhC--------C---------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQ--------N---------CEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~--------~---------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ...+......+.+.|++++|...|....+.        .         -+.+...|..+..+|.+.|++++|+..+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345667778888888888888888877653        0         01223455556666666666666666666655


Q ss_pred             HCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          261 SEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       261 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      +.... +...|..+..+|...|++++|...|++..+.
T Consensus        91 ~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            54322 4455555666666666666666666665554

>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=97.98  E-value=0.00047  Score=65.28  Aligned_cols=172  Identities=11%  Similarity=-0.018  Sum_probs=111.7

Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC----------hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC-
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN----------LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG-  247 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~-  247 (404)
                      .++|++.++.+.+.. +-+..+|+.--..+.+.|+          ++++.+.++.+.+.. +.+..+|+.-...+.+.+ 
T Consensus        45 ~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           45 DESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             SHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            346677777776654 4455566655555555555          677777777777665 666777777777777777 


Q ss_pred             -CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC-CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc---------
Q 015590          248 -NVEEAFGLLERMESEGIDADTVTFNILISGLRKQG-KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK---------  316 (404)
Q Consensus       248 -~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---------  316 (404)
                       ++++++..++++.+...+ +..+|+.-...+.+.| ..+++.+.++++.+..+. |...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccccccc
Confidence             567777777777776554 6667776666666667 677777777777766433 556666655555542         


Q ss_pred             -----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChH
Q 015590          317 -----KRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVE  355 (404)
Q Consensus       317 -----g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  355 (404)
                           +.++++++.+.++.... +-|...|.-.-..+.+.+..+
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCS
T ss_pred             ccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCcc
Confidence                 44677888887777642 335666776666666666533

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.96  E-value=0.00013  Score=67.34  Aligned_cols=123  Identities=10%  Similarity=-0.030  Sum_probs=70.1

Q ss_pred             HhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc---------------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          198 ACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN---------------VRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       198 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---------------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...+..+...|.+.|++++|...|++..+.. +.+               ...|..+..+|.+.|++++|+..|++..+.
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            4456667777777777777777777766542 112               355556666666666666666666665554


Q ss_pred             CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          263 GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       263 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      ... +...|..+..+|...|++++|...|++..+... -+...+..+..++.+.++.+++.
T Consensus       347 ~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          347 DSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             STT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             CCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHH
Confidence            322 445555566666666666666666666655421 13344555555555555555444

>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=97.94  E-value=0.0001  Score=65.93  Aligned_cols=137  Identities=9%  Similarity=-0.054  Sum_probs=72.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      .+..+...+.+.|++++|...|++..+.-  ++..          .....+++..       .. ..+...|..+..+|.
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~~----------~~~~~~~~~~-------~~-~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGSR----------AAAEDADGAK-------LQ-PVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHHH----------HHSCHHHHGG-------GH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcCc----------cccChHHHHH-------HH-HHHHHHHHHHHHHHH
Confidence            46667778888888888888888776410  0000          0000010000       00 013345555555666


Q ss_pred             cCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHH
Q 015590          280 KQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVD  358 (404)
Q Consensus       280 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~  358 (404)
                      +.|++++|+..+++..+.. +-+...|..+..+|...|++++|++.|++..+.. +.+...+..+..++...++.+++.
T Consensus       285 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666665542 1134555556666666666666666666665541 224445555555555555555544

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.90  E-value=3.4e-05  Score=68.13  Aligned_cols=147  Identities=13%  Similarity=0.051  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..+..+...+.+.|++++|...|+...+..  |+...       +...|+.+++...+.          ...|..+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHH
Confidence            345556666667777777777777766542  32221       112222222222110          12566667777


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCC-ChhhHHHHHHH-HHhcCChhH
Q 015590          244 CEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYP-NSASYQEVLYG-LLDKKRFPE  321 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~-~~~~g~~~~  321 (404)
                      .+.|++++|+..|++..+.... +...|..+..+|...|++++|...|++..+.  .| +...+..+... ....+..++
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~  317 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQK  317 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777776655322 5566777777777777777777777776655  22 23334444333 223455666


Q ss_pred             HHHHHHHHHHC
Q 015590          322 AKELVGRMICE  332 (404)
Q Consensus       322 a~~~~~~~~~~  332 (404)
                      +.+.|..|...
T Consensus       318 a~~~~~~~l~~  328 (338)
T 2if4_A          318 QKEMYKGIFKG  328 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHHhhCC
Confidence            67777776543

>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=97.87  E-value=0.00066  Score=51.07  Aligned_cols=110  Identities=17%  Similarity=0.054  Sum_probs=50.1

Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHH----cCCHHHHH
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE----KGNVEEAF  253 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~~~~~~A~  253 (404)
                      ++++|.++|+...+.| .++..    +...|...+.+++|.++|+...+.|   +..++..+...|..    .+++++|.
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 22222    4444444444445555555544433   33444444444444    44555555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCC
Q 015590          254 GLLERMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       254 ~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~  298 (404)
                      ..|++..+.|   +...+..|...|..    .++.++|..+|++..+.|
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            5555544442   33344444444444    444555555555444443

>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=0.0016  Score=61.57  Aligned_cols=174  Identities=10%  Similarity=-0.025  Sum_probs=129.5

Q ss_pred             CchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCC----------HHHHHHHHhhcccCCCCccHHHHHHHHHHHHh
Q 015590          106 RFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGR----------ISKAIETLFDMPSYNCWPSVKTFNLVLNLLVS  175 (404)
Q Consensus       106 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~  175 (404)
                      .-++|.+.++.+....   |.....|+.-.......|+          ++++++.++++.+.. +-+..+|+.-.-.+.+
T Consensus        44 ~~eeal~~~~~~l~~n---P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~  119 (567)
T 1dce_A           44 LDESVLELTSQILGAN---PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSR  119 (567)
T ss_dssp             CSHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHC---chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3456788888877654   4555555543333333444          889999999888755 2356688887778888


Q ss_pred             cC--cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC-ChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc------
Q 015590          176 AK--LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG-NLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK------  246 (404)
Q Consensus       176 ~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~------  246 (404)
                      .+  +++++++.++.+.+.. +-+..+|+.-.....+.| .++++.+.++++.+.. +-|..+|+.....+.+.      
T Consensus       120 l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          120 LPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             CSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             cccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccc
Confidence            88  7799999999999886 668888888888888888 8899999999998876 66888888877777663      


Q ss_pred             --------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHH
Q 015590          247 --------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEE  286 (404)
Q Consensus       247 --------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  286 (404)
                              +.++++++.+++....... |...|+.+-..+.+.++.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                    4578899999888876544 67788887777777666433

>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=97.85  E-value=0.00045  Score=51.99  Aligned_cols=88  Identities=10%  Similarity=-0.091  Sum_probs=39.5

Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD----KKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN  350 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  350 (404)
                      ...|...+..++|.+.|++..+.|   +...+..|-..|..    .+++++|.+.|++..+.|   +...+..+...|..
T Consensus        32 g~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~  105 (138)
T 1klx_A           32 SLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYA  105 (138)
T ss_dssp             HHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHcCC---CHHHHHHHHHHHHC
Confidence            333333344444444444444443   33344444444444    444555555555444432   23334444444444


Q ss_pred             ----CCChHHHHHHHHHHHHCC
Q 015590          351 ----QKLVEDVDWVLKKMVQQG  368 (404)
Q Consensus       351 ----~g~~~~a~~~~~~m~~~~  368 (404)
                          .++.++|...|++..+.|
T Consensus       106 G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A          106 GKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCcCHHHHHHHHHHHHHCC
Confidence                445555555555554443

>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=97.84  E-value=0.00031  Score=53.67  Aligned_cols=95  Identities=17%  Similarity=0.096  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCC-C-----C-----HhHHHHHHHHHHhcCChHHHHHHHHHchhC------
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVE-I-----D-----ACCLNILLKGLCENGNLEAAFYVLDEFPKQ------  227 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~-~-----~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~------  227 (404)
                      .+......+.+.|++++|+..|+..++.... |     +     ...|..+..++.+.|++++|+..++...+.      
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            4455556666777777777777777665311 0     1     114555555555555555555555544443      


Q ss_pred             -CCCCcHHHH----HHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          228 -NCEPNVRTY----STLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       228 -~~~~~~~~~----~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                       . +-+...|    .....++...|++++|+..|++..
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence             2 2233344    455555555555555555555543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.82  E-value=5.2e-05  Score=66.95  Aligned_cols=94  Identities=16%  Similarity=0.016  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH-H
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG-L  243 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~  243 (404)
                      .|..+..++.+.|++++|+..++...+.. +.+...+..+..+|...|++++|...|+...+.. +.+...+..+... .
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~  309 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            45555555555566666666665555543 3345555555555555566666655555554432 2223333333332 1


Q ss_pred             HHcCCHHHHHHHHHHHH
Q 015590          244 CEKGNVEEAFGLLERME  260 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~  260 (404)
                      ...+..+++...|..|.
T Consensus       310 ~~~~~~~~a~~~~~~~l  326 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIF  326 (338)
T ss_dssp             -----------------
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            22333444444554444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.80  E-value=2.3e-05  Score=56.23  Aligned_cols=65  Identities=14%  Similarity=0.040  Sum_probs=41.5

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      +...|..+...+...|++++|.+.|+...+.. +.+...+..+..+|.+.|++++|...++...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34556666666666667777777666666653 445566666666666666666666666666654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.74  E-value=0.00018  Score=66.53  Aligned_cols=86  Identities=14%  Similarity=0.008  Sum_probs=43.6

Q ss_pred             HhcCcHhHHHHHHHHHHHcC---CCC----CHhHHHHHHHHHHhcCChHHHHHHHHHchh-----CC--CCCcHHHHHHH
Q 015590          174 VSAKLYGEIQGIYTSAAKLG---VEI----DACCLNILLKGLCENGNLEAAFYVLDEFPK-----QN--CEPNVRTYSTL  239 (404)
Q Consensus       174 ~~~~~~~~a~~~~~~~~~~g---~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~--~~~~~~~~~~l  239 (404)
                      ...|++++|+.++++..+..   +.+    ...+++.|...|...|++++|+.++++..+     .|  .+-...+++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            35566666666666554321   111    133555566666666666666655555432     11  11123345555


Q ss_pred             HHHHHHcCCHHHHHHHHHHH
Q 015590          240 MHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       240 i~~~~~~~~~~~A~~~~~~m  259 (404)
                      ...|...|++++|+.++++.
T Consensus       400 a~~~~~~G~~~eA~~~~~~A  419 (490)
T 3n71_A          400 GLTNWHAGHIEVGHGMICKA  419 (490)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            55566666666665555554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.70  E-value=0.0005  Score=46.95  Aligned_cols=78  Identities=15%  Similarity=0.110  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..|..+...+...|++++|...++...+.. +.+..++..+...|.+.|++++|...|++..+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555555555556666666555555543 3344455555555555555555555555554432 23334444444333

>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=97.69  E-value=0.00057  Score=52.25  Aligned_cols=62  Identities=11%  Similarity=-0.016  Sum_probs=33.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCC-C-----cH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCE-P-----NV-----RTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~-----~~-----~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      .+......+.+.|++++|...|+...+.... |     +.     ..|+.+..++.+.|++++|+..+++..+
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~   85 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALH   85 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3445556666677777777777766554211 0     11     1555555555555555555555555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.67  E-value=6.7e-05  Score=53.76  Aligned_cols=63  Identities=13%  Similarity=0.141  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ..|..+...+.+.|++++|+..|++..+.... +...|..+..++...|++++|...+++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34444555555555555555555555443221 3444445555555555555555555555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.66  E-value=0.00041  Score=50.11  Aligned_cols=77  Identities=17%  Similarity=0.019  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          182 IQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       182 a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                      ++..|+...+.. +.+...+..+...|...|++++|...|+...+.. +.+...|..+...|...|++++|...|++..
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            333444444332 2334444444444444555555555544444432 2334444444444555555555555444443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.61  E-value=0.00023  Score=51.44  Aligned_cols=80  Identities=19%  Similarity=0.072  Sum_probs=55.5

Q ss_pred             HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          216 AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      .|...|++..+.. +.+...|..+...|...|++++|+..|++..+.... +...|..+...|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666665554 456677777777778888888888888777765332 45667777777777777777777777766


Q ss_pred             hC
Q 015590          296 GK  297 (404)
Q Consensus       296 ~~  297 (404)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            54

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.60  E-value=0.00062  Score=46.46  Aligned_cols=63  Identities=13%  Similarity=0.165  Sum_probs=32.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          199 CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       199 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...|++..+.
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            344445555555555555555555554432 334445555555555555555555555555443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.50  E-value=0.00051  Score=63.54  Aligned_cols=122  Identities=7%  Similarity=-0.042  Sum_probs=90.3

Q ss_pred             hcCCHHHHHHHHhhccc-----CC-CCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHc-----CC--CCCHhHHHHHH
Q 015590          140 MAGRISKAIETLFDMPS-----YN-CWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKL-----GV--EIDACCLNILL  205 (404)
Q Consensus       140 ~~g~~~~A~~~~~~m~~-----~~-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~--~~~~~~~~~li  205 (404)
                      ..|++++|+.++++..+     .| -.|+ ..+++.+...|...|++++|+.++++..+.     |-  +....+++.|.
T Consensus       321 ~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  400 (490)
T 3n71_A          321 SEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAG  400 (490)
T ss_dssp             TTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            37999999988876543     12 1133 357999999999999999999999987643     21  22356789999


Q ss_pred             HHHHhcCChHHHHHHHHHchh-----CC--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPK-----QN--CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~-----~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      ..|...|++++|+.++++..+     .|  .+....+.+.+-.++...+.+++|+.+|..+.+
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999987653     23  122234456666777788888999998888865

>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=97.46  E-value=0.00053  Score=52.30  Aligned_cols=94  Identities=15%  Similarity=0.087  Sum_probs=45.8

Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCC----------hHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc-
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGN----------LEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK-  246 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  246 (404)
                      .+++|.+.++...+.. +.+...|..+..++...++          +++|+..|++..+.. +.+..+|..+..+|... 
T Consensus        17 ~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~lg   94 (158)
T 1zu2_A           17 LFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSFA   94 (158)
T ss_dssp             HHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhc
Confidence            3444444444444433 3344444444444444433          335555555555543 33445555555555544 


Q ss_pred             ----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          247 ----------GNVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       247 ----------~~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                                |++++|+..|++..+.  .|+...|...+
T Consensus        95 ~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al  131 (158)
T 1zu2_A           95 FLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSL  131 (158)
T ss_dssp             HHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence                      3566666666666654  44444443333

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.39  E-value=0.00079  Score=47.28  Aligned_cols=60  Identities=15%  Similarity=0.135  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      ..|..+...|.+.|++++|+..|++..+.... +...|..+..+|...|++++|...|++.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444444444444444444444333211 2333444444444444444444444433

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.34  E-value=0.0012  Score=46.35  Aligned_cols=60  Identities=7%  Similarity=-0.162  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHc
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEF  224 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  224 (404)
                      ..+..+...+.+.|++++|+..|+...+.. +.+...|..+..+|...|++++|...|++.
T Consensus         8 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            8 FTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344444444444555555555555444443 223334444444444444444444444443

>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=97.31  E-value=0.00048  Score=52.51  Aligned_cols=86  Identities=9%  Similarity=-0.035  Sum_probs=52.6

Q ss_pred             hcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH----------HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 015590          210 ENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV----------EEAFGLLERMESEGIDADTVTFNILISGLR  279 (404)
Q Consensus       210 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~----------~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  279 (404)
                      +.+.+++|.+.++...+.. +.+...|+.+..++.+.+++          ++|+..|++..+.... +...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            4456777777777777665 56777777777777776654          3666666666655333 4455666666665


Q ss_pred             cCC-----------CHHHHHHHHHHHhhC
Q 015590          280 KQG-----------KVEEGMKLLERMKGK  297 (404)
Q Consensus       280 ~~g-----------~~~~a~~~~~~m~~~  297 (404)
                      ..|           ++++|.+.|++..+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l  120 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE  120 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh
Confidence            543           455555555555544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.11  E-value=0.011  Score=51.82  Aligned_cols=74  Identities=15%  Similarity=0.016  Sum_probs=51.8

Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHH
Q 015590          300 YPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWR  377 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  377 (404)
                      ..+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++..  .+.|...+|.
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~Al--rL~P~~~t~~  347 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAF--NLRPGANTLY  347 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH--HHSCSHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH--hcCCCcChHH
Confidence            3456666666666666688888888888877753  676666666677777888888888887776  3456666654

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.08  E-value=0.083  Score=46.27  Aligned_cols=48  Identities=0%  Similarity=-0.299  Sum_probs=27.5

Q ss_pred             ccHHHHHHHHHHHHh--cC---cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHH
Q 015590          161 PSVKTFNLVLNLLVS--AK---LYGEIQGIYTSAAKLGVEIDACCLNILLKGLC  209 (404)
Q Consensus       161 p~~~~~~~ll~~~~~--~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~  209 (404)
                      .+...|...+++...  .+   +..+|..+|++..+.. |-....+..+.-+|.
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~  244 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDI  244 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            455667766655432  22   3567888888888764 333455554444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.98  E-value=0.022  Score=56.36  Aligned_cols=149  Identities=16%  Similarity=0.149  Sum_probs=81.8

Q ss_pred             cCCHHHHHH-HHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHH
Q 015590          141 AGRISKAIE-TLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFY  219 (404)
Q Consensus       141 ~g~~~~A~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~  219 (404)
                      .+++++|.+ ++..+.      +......++..+.+.|.+++|.++.++-.            .-.......|+++.|.+
T Consensus       612 ~~~~~~a~~~~l~~i~------~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~  673 (814)
T 3mkq_A          612 RGEIEEAIENVLPNVE------GKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARD  673 (814)
T ss_dssp             TTCHHHHHHHTGGGCC------CHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHH
T ss_pred             hCCHHHHHHHHHhcCC------chHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHH
Confidence            577777766 443322      01222666666677777777766553111            11334556778888877


Q ss_pred             HHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCC
Q 015590          220 VLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGC  299 (404)
Q Consensus       220 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  299 (404)
                      +.+.+      .+...|..+...+.+.++++.|.+.|.++..         |..+...|...|+.+...++-+.....| 
T Consensus       674 ~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~-  737 (814)
T 3mkq_A          674 LLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG-  737 (814)
T ss_dssp             HHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT-
T ss_pred             HHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC-
Confidence            75544      3556788888888888888888888877642         2233344444555555554444444332 


Q ss_pred             CCChhhHHHHHHHHHhcCChhHHHHHHHH
Q 015590          300 YPNSASYQEVLYGLLDKKRFPEAKELVGR  328 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~  328 (404)
                           -++.-..+|.+.|++++|++++.+
T Consensus       738 -----~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          738 -----KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             -----CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             -----chHHHHHHHHHcCCHHHHHHHHHH
Confidence                 122223334444555555544443

>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=96.78  E-value=0.0045  Score=56.25  Aligned_cols=62  Identities=11%  Similarity=-0.028  Sum_probs=30.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESE-----GI-DAD-TVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~-----~~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      .+++.+..+|...|++++|+.++++..+-     |. .|+ ..+++.|...|...|++++|+.++++..
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            34555555555555555555555554321     11 111 2345555555555555555555555443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.75  E-value=0.0039  Score=43.26  Aligned_cols=50  Identities=4%  Similarity=-0.065  Sum_probs=19.3

Q ss_pred             hcCcHhHHHHHHHHHHHcCCCCCHh-HHHHHHHHHHhcCChHHHHHHHHHch
Q 015590          175 SAKLYGEIQGIYTSAAKLGVEIDAC-CLNILLKGLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       175 ~~~~~~~a~~~~~~~~~~g~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~  225 (404)
                      +.|++++|...++...+.. +.+.. .+..+..+|...|++++|...|++..
T Consensus        12 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A           12 NQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444444444443332 22223 33333344444444444444444333

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.67  E-value=0.0053  Score=42.56  Aligned_cols=57  Identities=19%  Similarity=0.296  Sum_probs=36.5

Q ss_pred             HHHHHhcCChHHHHHHHHHchhCCCCCcHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQNCEPNVR-TYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      ...+.+.|++++|...|+...+.. +.+.. .|..+...|...|++++|...|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            445566677777777777666553 33445 6666666667777777777777766655

>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=96.67  E-value=0.0093  Score=54.19  Aligned_cols=92  Identities=15%  Similarity=0.026  Sum_probs=54.6

Q ss_pred             HHHHHhcCChHHHHHHHHHchhC---CCC----CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CC-CCC-HHH
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQ---NCE----PNVRTYSTLMHGLCEKGNVEEAFGLLERMESE-----GI-DAD-TVT  270 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~---~~~----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-----~~-~p~-~~~  270 (404)
                      +.-+.+.|++++|+.++++..+.   -+.    ....+++.+...|...|++++|+.++++..+-     |. .|+ ..+
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            33444566777777777665432   111    12346667777777777777777777765431     21 122 345


Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHhh
Q 015590          271 FNILISGLRKQGKVEEGMKLLERMKG  296 (404)
Q Consensus       271 ~~~li~~~~~~g~~~~a~~~~~~m~~  296 (404)
                      ++.|...|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            66777777777777777777766543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.59  E-value=0.04  Score=40.08  Aligned_cols=63  Identities=24%  Similarity=0.183  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      ..+..++.+...|.-++..+++..+... .+|++...-.+.++|.+.|+..+|.+++.+..+.|
T Consensus        93 ~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           93 HVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3444444555555555555555543322 14444444455555555555555555555555444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.54  E-value=0.054  Score=53.55  Aligned_cols=154  Identities=10%  Similarity=0.024  Sum_probs=96.6

Q ss_pred             HHHHhcCcHhHHHH-HHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          171 NLLVSAKLYGEIQG-IYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       171 ~~~~~~~~~~~a~~-~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ......+++++|.+ ++..     ++ +......++..+.+.|.++.|.++.++       |.     .-.....+.|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----VE-GKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----CC-CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----CC-chHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCH
Confidence            34456788888876 4421     12 122337888889999999999876532       11     113445778999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          250 EEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      ++|.++.+.+      .+...|..+...+.+.|+++.|++.|..+.+         |..+...+...|+.+...++.+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a  733 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDA  733 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHH
Confidence            9999986554      3778999999999999999999999998763         223334444455555555554444


Q ss_pred             HHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHH
Q 015590          330 ICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKK  363 (404)
Q Consensus       330 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  363 (404)
                      ...|.      ++....+|.+.|++++|.+++.+
T Consensus       734 ~~~~~------~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          734 ETTGK------FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHcCc------hHHHHHHHHHcCCHHHHHHHHHH
Confidence            44331      22223334444455555444443

>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=96.49  E-value=0.017  Score=52.51  Aligned_cols=92  Identities=13%  Similarity=-0.013  Sum_probs=69.9

Q ss_pred             HHHHHcCCCHHHHHHHHHHHhhC--C-CCCC----hhhHHHHHHHHHhcCChhHHHHHHHHHHHC-----C-CCCC-HHH
Q 015590          275 ISGLRKQGKVEEGMKLLERMKGK--G-CYPN----SASYQEVLYGLLDKKRFPEAKELVGRMICE-----R-MSPS-FVS  340 (404)
Q Consensus       275 i~~~~~~g~~~~a~~~~~~m~~~--~-~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~-~~p~-~~~  340 (404)
                      +..+...|++++|+.++++..+.  . +.|+    ..+++.+...|...|++++|+.++++..+.     | ..|+ ..+
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            44566778999999999888754  1 1222    457888889999999999999999887643     2 2233 356


Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          341 YKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       341 ~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      ++.|...|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88888999999999999999988764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.26  E-value=0.082  Score=36.19  Aligned_cols=66  Identities=9%  Similarity=0.002  Sum_probs=30.3

Q ss_pred             CcHHHHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          231 PNVRTYSTLMHGLCEKGN---VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       231 ~~~~~~~~li~~~~~~~~---~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .|...+..+..++...++   .++|..+|++..+.... +......+...+.+.|++++|...|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344444444444433322   35555555555444222 3344444444455555555555555555544

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.17  E-value=0.043  Score=37.66  Aligned_cols=48  Identities=10%  Similarity=0.076  Sum_probs=22.1

Q ss_pred             HhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          179 YGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       179 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      .++|..++++..+.. +-++.....+...+.+.|++++|...|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344444444444443 333444444444444444444444444444443

>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=96.12  E-value=0.016  Score=52.67  Aligned_cols=85  Identities=11%  Similarity=-0.100  Sum_probs=56.6

Q ss_pred             cCCHHHHHHHHhhccc-----CC-CCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHc-----CC-CC-CHhHHHHHHH
Q 015590          141 AGRISKAIETLFDMPS-----YN-CWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKL-----GV-EI-DACCLNILLK  206 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~-----~~-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----g~-~~-~~~~~~~li~  206 (404)
                      .|++++|+.++++..+     .| -.|+ ..+++.+..+|...|++++|+.++++..+.     |- .| ...+++.|..
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            5778888888876533     11 1122 257888888888888888888888877642     21 12 2345677777


Q ss_pred             HHHhcCChHHHHHHHHHch
Q 015590          207 GLCENGNLEAAFYVLDEFP  225 (404)
Q Consensus       207 ~~~~~g~~~~a~~~~~~~~  225 (404)
                      .|...|++++|+.++++..
T Consensus       391 ~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            7777777777777777654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.01  E-value=0.055  Score=40.75  Aligned_cols=79  Identities=16%  Similarity=0.133  Sum_probs=33.5

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHhhCCCCC--ChhhHHHHHHHHHhcCChhHHHHH
Q 015590          251 EAFGLLERMESEGIDADTVTFNILISGLRKQG---KVEEGMKLLERMKGKGCYP--NSASYQEVLYGLLDKKRFPEAKEL  325 (404)
Q Consensus       251 ~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~  325 (404)
                      .+.+-|.+..+.|. ++..+...+..++++.+   +.+++..++++..+.. .|  +...+-.+.-++.+.|++++|.++
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33344444333333 34444444444444444   3334555555444432 12  123333333344455555555555


Q ss_pred             HHHHHH
Q 015590          326 VGRMIC  331 (404)
Q Consensus       326 ~~~~~~  331 (404)
                      ++.+.+
T Consensus        94 ~~~lL~   99 (152)
T 1pc2_A           94 VRGLLQ   99 (152)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            555444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.91  E-value=0.27  Score=38.03  Aligned_cols=103  Identities=18%  Similarity=0.185  Sum_probs=56.7

Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVE  285 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  285 (404)
                      .....+|+++.|.++.+.+.      +...|..+.......|+++-|.+.|.+...         +..+.--|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            34455666666666655542      455666666666666666666666665431         223333344456665


Q ss_pred             HHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHH
Q 015590          286 EGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRM  329 (404)
Q Consensus       286 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  329 (404)
                      +-..+-+.....|      -++.-...+...|+++++.+++.+.
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            5555544444443      2333444455566666666666443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.79  E-value=0.1  Score=36.54  Aligned_cols=64  Identities=11%  Similarity=0.068  Sum_probs=30.6

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC------CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchh
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG------VEIDACCLNILLKGLCENGNLEAAFYVLDEFPK  226 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  226 (404)
                      ...+..+...+.+.+++..|...|+...+.-      -.+...++..+..+|.+.|+++.|...+++..+
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3344445555555555555555555544321      012334444455555555555555555554443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.72  E-value=0.79  Score=38.59  Aligned_cols=84  Identities=14%  Similarity=0.061  Sum_probs=46.1

Q ss_pred             HHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcC-----CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc-CChh
Q 015590          250 EEAFGLLERMESEGIDAD---TVTFNILISGLRKQ-----GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK-KRFP  320 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~  320 (404)
                      ..|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            4455555555544  233   34566666666663     66666666666666552111245555555555553 6666


Q ss_pred             HHHHHHHHHHHCCCC
Q 015590          321 EAKELVGRMICERMS  335 (404)
Q Consensus       321 ~a~~~~~~~~~~~~~  335 (404)
                      ++.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            666666666655433

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.70  E-value=0.44  Score=36.79  Aligned_cols=103  Identities=11%  Similarity=0.170  Sum_probs=76.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChh
Q 015590          241 HGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFP  320 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  320 (404)
                      ....+.|+++.|.++.+++.      +...|..|.......|+++-|++.|....+         +..+.-.|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l~------~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKLN------DSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHHC------CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHhC------CHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            44568999999999988762      788999999999999999999999998763         334455566678877


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          321 EAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       321 ~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                      .-.++-+.....|-      ++.....+...|+++++.+++.+.
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHC
Confidence            77766666555442      455555666778888888777553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.54  E-value=0.16  Score=35.48  Aligned_cols=67  Identities=13%  Similarity=0.058  Sum_probs=43.0

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC------CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          196 IDACCLNILLKGLCENGNLEAAFYVLDEFPKQN------CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       196 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+..-+..+...+.+.|+++.|..+|+...+.-      -.+....+..+..+|.+.|++++|...+++..+.
T Consensus         3 Lsa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            3 LTAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            344556667777777777777777777655420      1234556666777777777777777777776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.39  E-value=0.13  Score=38.71  Aligned_cols=80  Identities=13%  Similarity=0.074  Sum_probs=36.6

Q ss_pred             HHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          216 AAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG---NVEEAFGLLERMESEGIDA--DTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       216 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      .+++-|.+..+.| +++..+...+..++++.+   +.++++.+|++..+.+ .|  ....+-.+.-+|.+.|++++|.+.
T Consensus        16 ~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            3344444333333 344444444555555544   3335555555554442 12  122233344444555555555555


Q ss_pred             HHHHhhC
Q 015590          291 LERMKGK  297 (404)
Q Consensus       291 ~~~m~~~  297 (404)
                      ++.+.+.
T Consensus        94 ~~~lL~i  100 (152)
T 1pc2_A           94 VRGLLQT  100 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            5555544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.33  E-value=1.1  Score=37.73  Aligned_cols=128  Identities=13%  Similarity=0.044  Sum_probs=79.2

Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHH-HHHhc--Cc------HhHHHHHHHHHHHcCCCCC---HhHHHHHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLN-LLVSA--KL------YGEIQGIYTSAAKLGVEID---ACCLNILLKGLC  209 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~-~~~~~--~~------~~~a~~~~~~~~~~g~~~~---~~~~~~li~~~~  209 (404)
                      ++..+-.+.+.+....+  +....|..++. .+...  |+      ...|...+++.++.  .|+   ...|..+...|.
T Consensus       135 ~~~~~~~~~l~~~~~~d--ve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~  210 (301)
T 3u64_A          135 GDEQRLHKVLSRCTRVD--VGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYA  210 (301)
T ss_dssp             SCHHHHHHHHTTCCGGG--HHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHH
T ss_pred             cchhhHHHHHHHcCccc--cHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHH
Confidence            44444444555544322  33345655544 23332  32      44666667777665  344   567888888888


Q ss_pred             hc-----CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCC--CCHHHHHH
Q 015590          210 EN-----GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK-GNVEEAFGLLERMESEGID--ADTVTFNI  273 (404)
Q Consensus       210 ~~-----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-~~~~~A~~~~~~m~~~~~~--p~~~~~~~  273 (404)
                      +.     |+.++|.+.|++..+.+-.-+..++......++.. |+.+++.+.+++.......  |+....+.
T Consensus       211 ~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~  282 (301)
T 3u64_A          211 AAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVI  282 (301)
T ss_dssp             HSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHH
T ss_pred             hCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHH
Confidence            84     88888888888887764212367777777777774 8888888888888877655  55444443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.10  E-value=0.66  Score=33.89  Aligned_cols=138  Identities=14%  Similarity=0.101  Sum_probs=83.8

Q ss_pred             cCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHH
Q 015590          211 NGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKL  290 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  290 (404)
                      .|.+++..++..+....   .+..-||.+|--....-+-+-..++++..-+.   .|.          ..+|+.......
T Consensus        20 dG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrVi~C   83 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSVVEC   83 (172)
T ss_dssp             TTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHHHHH
T ss_pred             hhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHHHHH
Confidence            46667777776666552   34455565555555555555555554444321   221          234555555544


Q ss_pred             HHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCC
Q 015590          291 LERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFV  370 (404)
Q Consensus       291 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  370 (404)
                      +-.+-.     +...+..-++.+...|+-++-.++...+... .+|++...-.+..+|.+.|+..+|.+++.+..+.|++
T Consensus        84 ~~~~n~-----~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           84 GVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHhcc-----hHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            443332     3455566677777778877777777775432 4677777777778888888888888888887777765

>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=94.98  E-value=1.6  Score=38.78  Aligned_cols=68  Identities=15%  Similarity=0.151  Sum_probs=36.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhh-----CCCCCChhh
Q 015590          237 STLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKG-----KGCYPNSAS  305 (404)
Q Consensus       237 ~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  305 (404)
                      ..++..+...|++++|...+..+..... .+...|..+|.++.+.|+..+|++.|+...+     .|+.|...+
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 TAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3344555555666666555555544322 2455555666666666666666655555432     155555544

>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=94.73  E-value=0.28  Score=36.57  Aligned_cols=32  Identities=13%  Similarity=0.138  Sum_probs=17.3

Q ss_pred             CCcHHHHHHHHHHHHHcCCH------HHHHHHHHHHHH
Q 015590          230 EPNVRTYSTLMHGLCEKGNV------EEAFGLLERMES  261 (404)
Q Consensus       230 ~~~~~~~~~li~~~~~~~~~------~~A~~~~~~m~~  261 (404)
                      +.|..+|-..+...-+.|++      ++..++|++...
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia   47 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE   47 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH
Confidence            34455555555555555555      555555555544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.55  E-value=2.6  Score=38.22  Aligned_cols=57  Identities=16%  Similarity=0.133  Sum_probs=24.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHcCCCHHHHHHHHHHH
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESEGIDAD-----TVTFNILISGLRKQGKVEEGMKLLERM  294 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m  294 (404)
                      .|...|...|++.+|..++..+...-...+     ...+..-++.|...+++.+|..+++++
T Consensus       142 ~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki  203 (445)
T 4b4t_P          142 DLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKI  203 (445)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            344444555555555555554432111111     122333444444555555555555443

>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=94.08  E-value=0.56  Score=34.98  Aligned_cols=53  Identities=13%  Similarity=0.142  Sum_probs=32.1

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC
Q 015590          247 GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY  300 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  300 (404)
                      ++.++|.++|+.+...+-+. ...|......-.+.|+...|.+++......+.+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            56666666666665443333 555555555556667777777777766665544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=93.63  E-value=6.3  Score=39.20  Aligned_cols=260  Identities=12%  Similarity=0.015  Sum_probs=120.4

Q ss_pred             HHhcCCChhHHHHHHHHHhhCCCCCCCHH--HHHHHHHHHHhcCCchHHHHHHHHHHhcccC--CC--ChHHHHHHHHHH
Q 015590           64 IFSNLRDPISVISVLNQYSKRKDYNPNEA--LYTLIINKLAQAKRFDAIEDIMQRIKVEKLC--RF--SDGFFYNVIKIY  137 (404)
Q Consensus        64 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~--~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~--~~--~~~~~~~~l~~~  137 (404)
                      +....|+.++++.++...+...+ ..+..  .=..+.-+....|..+++..++.........  ..  .+........++
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~-s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSR-ASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSC-CSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccC-CCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            45566777778877777653210 12222  2223333344555555666666554332200  00  011111111111


Q ss_pred             Hh---hcCCHHHHHHHHhhcccCCCCccHHHHH--HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcC
Q 015590          138 GN---MAGRISKAIETLFDMPSYNCWPSVKTFN--LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENG  212 (404)
Q Consensus       138 ~~---~~g~~~~A~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g  212 (404)
                      ..   -.++ +++.+.+..+....- +......  .+...+...|+.+....++..+.+.. .-+..-...+.-++.-.|
T Consensus       462 Gla~~GS~~-eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          462 GLAAMGSAN-IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHHSTTCCC-HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTT
T ss_pred             HHHhcCCCC-HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCC
Confidence            11   1233 344444444433210 1111111  22233445667776777777666532 112222222333334567


Q ss_pred             ChHHHHHHHHHchhCCCCCcHHHHH---HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHH
Q 015590          213 NLEAAFYVLDEFPKQNCEPNVRTYS---TLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMK  289 (404)
Q Consensus       213 ~~~~a~~~~~~~~~~~~~~~~~~~~---~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  289 (404)
                      +.+.+..+.+.+.... .|. .-|.   ++.-+|+..|+.....+++..+.... ..+......+.-++...|+.+.+.+
T Consensus       539 ~~e~~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          539 RQELADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             CGGGGHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             ChHHHHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            7777777777776531 222 2233   23345666777777666777776542 1122222222333444566666666


Q ss_pred             HHHHHhhCCCCCChhhHHHHHHHHHhcCCh-hHHHHHHHHHHH
Q 015590          290 LLERMKGKGCYPNSASYQEVLYGLLDKKRF-PEAKELVGRMIC  331 (404)
Q Consensus       290 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~  331 (404)
                      +++.+.+.+ .|....-..+.-+....|.. .++.+++..+..
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            666555543 33333333333344444443 567777777763

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.53  E-value=2.9e-05  Score=69.43  Aligned_cols=244  Identities=14%  Similarity=0.109  Sum_probs=145.0

Q ss_pred             CCccchhhcccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc
Q 015590           42 DSDHHAYKLNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEK  121 (404)
Q Consensus        42 ~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~  121 (404)
                      .+....++.+.|  ..|..+-.+..+.+...+|++-|-+.       -|+..|..+|.+..+.|.+++..+.+...++..
T Consensus        43 Ra~eyA~~~n~p--~VWs~LgkAqL~~~~v~eAIdsyIkA-------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~  113 (624)
T 3lvg_A           43 RAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA  113 (624)
T ss_dssp             TTTTSSSSCCCC--CCSSSHHHHTTTSSSCTTTTTSSCCC-------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC
T ss_pred             HHHHHHHHhCCc--cHHHHHHHHHHccCchHHHHHHHHhC-------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh
Confidence            333333444444  45778888888888888887755433       245567788999999999999888888765442


Q ss_pred             cCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHH
Q 015590          122 LCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL  201 (404)
Q Consensus       122 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  201 (404)
                         ..+.+-..++.+|++ .++..+-.++    ..   .||..-...+..-|...|.++.|.-+|..+..         |
T Consensus       114 ---ke~~IDteLi~ayAk-~~rL~elEef----l~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN---------~  173 (624)
T 3lvg_A          114 ---RESYVETELIFALAK-TNRLAELEEF----IN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------F  173 (624)
T ss_dssp             ---CSTTTTHHHHHHHHT-SCSSSTTTST----TS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCC---------C
T ss_pred             ---cccccHHHHHHHHHh-hCcHHHHHHH----Hc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCcc---------H
Confidence               222333456666666 6665442222    21   27777777888888888888888777754432         2


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      .-|...+.+.|++..|.+.   ..+   ..+..||..+-.+|...+.+.-|...--.+.-.   ||  -...++..|...
T Consensus       174 akLAstLV~L~~yq~AVda---ArK---Ans~ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~  242 (624)
T 3lvg_A          174 GRLASTLVHLGEYQAAVDG---ARK---ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDR  242 (624)
T ss_dssp             TTTSSSSSSCSGGGSSTTT---TTT---CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTT
T ss_pred             HHHHHHHHHHHHHHHHHHH---HHh---cCChhHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhC
Confidence            2333445556666655432   222   235567777777777777766655544443321   11  112345556677


Q ss_pred             CCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHH
Q 015590          282 GKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVG  327 (404)
Q Consensus       282 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  327 (404)
                      |.+++-+.+++.-.... +.....|+-|.-.|++- ++++..+.++
T Consensus       243 G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlk  286 (624)
T 3lvg_A          243 GYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLE  286 (624)
T ss_dssp             CCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHT
T ss_pred             CCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHH
Confidence            77777777776665332 34566666666666654 3444444443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=93.35  E-value=8.4  Score=39.76  Aligned_cols=55  Identities=18%  Similarity=0.179  Sum_probs=37.4

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcc
Q 015590           94 YTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMP  155 (404)
Q Consensus        94 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  155 (404)
                      ...++..+.+.+..+.+.++...+.      .++...+-....+.. .|++++|.+.|.+..
T Consensus       815 ~~~l~~~l~~~~~~~~~~~l~~~~~------~~~~~~yl~g~~~L~-~ge~~~A~~~F~kaa  869 (1139)
T 4fhn_B          815 VTELVEKLFLFKQYNACMQLIGWLN------SDPIAVYLKALIYLK-SKEAVKAVRCFKTTS  869 (1139)
T ss_dssp             HHHHHHHHHHHSCTTHHHHHHHHSC------CCHHHHHHHHHHHHH-TTCHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcc------CCcHHHHHHHHHHHh-cCCHHHHHHHHHHHh
Confidence            3356777888888888888766542      233333444444554 999999999998763

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.30  E-value=4.6  Score=36.63  Aligned_cols=97  Identities=16%  Similarity=0.171  Sum_probs=72.0

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHhhC--CCCCC---hhhHHHHHHHHHhcCChhHHHHHHHHHHH----CCCCCCH--H
Q 015590          271 FNILISGLRKQGKVEEGMKLLERMKGK--GCYPN---SASYQEVLYGLLDKKRFPEAKELVGRMIC----ERMSPSF--V  339 (404)
Q Consensus       271 ~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~p~~--~  339 (404)
                      ...|...|...|++.+|.+++.++...  |....   ...+..-+..|...+++..|..++.++..    ....|+.  .
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            356788899999999999999998654  32221   35667778889999999999999988753    2222222  3


Q ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          340 SYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       340 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      .+...+..+...+++.+|.+.|.+..+.
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~~~~  247 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEIYQT  247 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            5667778888899999998888877653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.27  E-value=0.44  Score=46.20  Aligned_cols=120  Identities=17%  Similarity=0.170  Sum_probs=71.1

Q ss_pred             HHhhcCC-HHHHHHHHhhcccCCCCccHHHH--HHHHHHHHhcCc-HhHHHHHHHHHHHc------CCCC-CH-------
Q 015590          137 YGNMAGR-ISKAIETLFDMPSYNCWPSVKTF--NLVLNLLVSAKL-YGEIQGIYTSAAKL------GVEI-DA-------  198 (404)
Q Consensus       137 ~~~~~g~-~~~A~~~~~~m~~~~~~p~~~~~--~~ll~~~~~~~~-~~~a~~~~~~~~~~------g~~~-~~-------  198 (404)
                      +....++ ++.|..+|+++...+  |...++  ..++..+...++ --+|.++..+..+.      ..++ +.       
T Consensus       257 ~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~~  334 (754)
T 4gns_B          257 FIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLMN  334 (754)
T ss_dssp             HHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHHH
T ss_pred             HHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccccccC
Confidence            3333555 577888888887754  433332  223333333322 22344444443321      1111 11       


Q ss_pred             ---hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          199 ---CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       199 ---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                         ...+.=.+.+...|+++.|+++-++....- +-+-.+|-.|...|...|+++.|+-.++.+
T Consensus       335 ~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          335 CMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence               122222455667888888888888877664 556778999999999999999998888876

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=93.20  E-value=1.6  Score=42.35  Aligned_cols=53  Identities=17%  Similarity=0.119  Sum_probs=40.7

Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          311 YGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       311 ~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                      +.+...|+++-|+++-++.... .+-+..+|..|..+|...|+++.|+-.++.+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~-aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTEL-ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH-CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhc-CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            3355678888888888888765 2345678888888888888888888888766

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.98  E-value=0.39  Score=34.74  Aligned_cols=23  Identities=17%  Similarity=0.237  Sum_probs=11.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHH
Q 015590          309 VLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       309 li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      |.-++.+.|++++|.+.++.+.+
T Consensus        80 LAvg~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           80 LAVGNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHH
Confidence            33345555555555555555544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.84  E-value=0.82  Score=33.03  Aligned_cols=85  Identities=15%  Similarity=0.071  Sum_probs=45.5

Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCChHHHH
Q 015590          284 VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPE---AKELVGRMICERMSP--SFVSYKKLIHGLCNQKLVEDVD  358 (404)
Q Consensus       284 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~---a~~~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~a~  358 (404)
                      ...+.+-|.+....|. |+..+--.+..++.+......   ++.++++..+.+ .|  .....-.+.-++.+.|++++|+
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3444555554444332 455555555555665554443   666666665542 12  1223333445667777777777


Q ss_pred             HHHHHHHHCCCCCC
Q 015590          359 WVLKKMVQQGFVPR  372 (404)
Q Consensus       359 ~~~~~m~~~~~~p~  372 (404)
                      +.++.+++  ++|+
T Consensus        95 ~~~~~lL~--~eP~  106 (126)
T 1nzn_A           95 KYVRGLLQ--TEPQ  106 (126)
T ss_dssp             HHHHHHHH--HCTT
T ss_pred             HHHHHHHH--hCCC
Confidence            77777763  4453

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=92.56  E-value=5.5  Score=41.12  Aligned_cols=143  Identities=9%  Similarity=-0.006  Sum_probs=78.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC------------------
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGI------------------  264 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~------------------  264 (404)
                      .++..+.+.+..+.+.++.....     .+...--.+..+|...|++++|...|.+... |+                  
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~  890 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAE  890 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhcccccccc
Confidence            34555556666666655544433     2222323344556666666666666654321 11                  


Q ss_pred             -----CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC-CC-CC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC
Q 015590          265 -----DADTVTFNILISGLRKQGKVEEGMKLLERMKGKG-CY-PN--SASYQEVLYGLLDKKRFPEAKELVGRMICERMS  335 (404)
Q Consensus       265 -----~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~-p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  335 (404)
                           ..-..-|..++..+.+.+.++.+.++-+...+.. .. ++  ...|..+.+.+...|++++|...+-.+..... 
T Consensus       891 ~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~-  969 (1139)
T 4fhn_B          891 KYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL-  969 (1139)
T ss_dssp             TTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS-
T ss_pred             cccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH-
Confidence                 0011235667777777777777777766555431 11 11  12467777777777888888777776665432 


Q ss_pred             CCHHHHHHHHHHHHcCCC
Q 015590          336 PSFVSYKKLIHGLCNQKL  353 (404)
Q Consensus       336 p~~~~~~~li~~~~~~g~  353 (404)
                       -......++..++..|.
T Consensus       970 -r~~cLr~LV~~lce~~~  986 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGK  986 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCC
T ss_pred             -HHHHHHHHHHHHHhCCC
Confidence             23455555555554433

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=92.50  E-value=7.4  Score=36.92  Aligned_cols=115  Identities=10%  Similarity=0.016  Sum_probs=65.0

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHH----HHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          248 NVEEAFGLLERMESEGIDADTVTF----NILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       248 ~~~~A~~~~~~m~~~~~~p~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      +.+.|...+........ .+....    ..+.......+...++...+.......  ++.....-.+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHH
Confidence            67888888877764432 233222    222223333443455666666554432  23333333444445668888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          324 ELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       324 ~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      ..|..|..... ....-.--+.+++...|+.++|..+|+.+.+
T Consensus       306 ~~~~~l~~~~~-~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAK-EKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGG-GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHcccccc-ccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88887754321 1233233355677778888888888888763

>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=92.36  E-value=1.8  Score=38.54  Aligned_cols=67  Identities=10%  Similarity=0.007  Sum_probs=35.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH-----CCCCCCHHh
Q 015590          308 EVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-----QGFVPRMGM  375 (404)
Q Consensus       308 ~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  375 (404)
                      .++..+...|+.++|...+..+... -+.+...|..+|.++.+.|+..+|.+.|+.+.+     .|+.|...+
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3444555555555555555555443 133555555556666666666666555555432     255555543

>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=91.85  E-value=2.1  Score=29.29  Aligned_cols=50  Identities=14%  Similarity=0.077  Sum_probs=29.8

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          283 KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       283 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +.-+..+-++.+....+.|++....+.+.+|.+.+++..|.++++..+.+
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            34455555555555556666666666666666666666666666665543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=91.57  E-value=0.036  Score=50.08  Aligned_cols=219  Identities=14%  Similarity=0.057  Sum_probs=138.2

Q ss_pred             cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHH
Q 015590           50 LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGF  129 (404)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  129 (404)
                      +...|+..|..+|....+.|.+++-+..+.-. ++.  ..++..=+.|+-+|++.+++.+.++++.        .++...
T Consensus        78 IkA~Dps~y~eVi~~A~~~~~~edLv~yL~Ma-Rk~--~ke~~IDteLi~ayAk~~rL~elEefl~--------~~N~A~  146 (624)
T 3lvg_A           78 IKADDPSSYMEVVQAANTSGNWEELVKYLQMA-RKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAH  146 (624)
T ss_dssp             CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTT-STT--CCSTTTTHHHHHHHHTSCSSSTTTSTTS--------CCSSSC
T ss_pred             HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHH-HHH--hcccccHHHHHHHHHhhCcHHHHHHHHc--------CCCccc
Confidence            34578889999999999999999999887755 333  2334444589999999999887655432        244455


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCC--------------------CCccHHHHHHHHHHHHhcCcHhHHHHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYN--------------------CWPSVKTFNLVLNLLVSAKLYGEIQGIYTSA  189 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~--------------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  189 (404)
                      ....-..++. .|.++.|.-+|..+..-.                    -..++.||-.+-.+|...+++..|.-.--.+
T Consensus       147 iq~VGDrcf~-e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLni  225 (624)
T 3lvg_A          147 IQQVGDRCYD-EKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHI  225 (624)
T ss_dssp             THHHHHHHHH-SCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHH
T ss_pred             HHHHHHHHHH-ccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchh
Confidence            6666666776 888888888876553211                    1245678999999999988888776554444


Q ss_pred             HHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC---
Q 015590          190 AKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA---  266 (404)
Q Consensus       190 ~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p---  266 (404)
                      +-..     .-...++..|-..|-+++-..+++.-.... ......|+.|.-.|++- ++++..+-++....+=--|   
T Consensus       226 Ivha-----deL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeKlmEHlklf~sriNipKvi  298 (624)
T 3lvg_A          226 VVHA-----DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVL  298 (624)
T ss_dssp             HCCS-----SCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTH
T ss_pred             cccH-----HHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHH
Confidence            4221     122345666777777777777777655322 45666777777776664 4454444443322210011   


Q ss_pred             ----CHHHHHHHHHHHHcCCCHHHH
Q 015590          267 ----DTVTFNILISGLRKQGKVEEG  287 (404)
Q Consensus       267 ----~~~~~~~li~~~~~~g~~~~a  287 (404)
                          ....|.-++-.|.+-.++|.|
T Consensus       299 racE~ahLW~ElvfLY~~ydE~DnA  323 (624)
T 3lvg_A          299 RAAEQAHLWAELVFLYDKYEEYDNA  323 (624)
T ss_dssp             HHHTTTTCHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHhhHHHHHHHHhcchhHHHH
Confidence                223455555556655555544

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.97  E-value=4  Score=31.00  Aligned_cols=70  Identities=9%  Similarity=0.023  Sum_probs=48.8

Q ss_pred             cccCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCH-------HHHHHHHHHHHhcCCchHHHHHHHHHHh
Q 015590           50 LNHKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNE-------ALYTLIINKLAQAKRFDAIEDIMQRIKV  119 (404)
Q Consensus        50 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~  119 (404)
                      .|+.+...+-.-++.+...+.++.|..+.+.+....+.+|+.       .++..+.+++...|++.+|...|+...+
T Consensus        15 ~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           15 VPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            355566677777888999999999998888765543334442       3566777888999999999999998644

>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=89.92  E-value=3.4  Score=28.30  Aligned_cols=76  Identities=11%  Similarity=0.047  Sum_probs=50.3

Q ss_pred             HHHHHHHHHhhcC-CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 015590          130 FYNVIKIYGNMAG-RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLK  206 (404)
Q Consensus       130 ~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  206 (404)
                      +..--..+..+.. +.=+..+-++.+...++.|++....+.+++|.+.+++..|.++++-++..- .....+|..++.
T Consensus        11 F~aRy~~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           11 FDARWVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            3333333443334 556677777777777778888888888888888888888888888776542 233445665553

>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=89.65  E-value=4  Score=29.66  Aligned_cols=62  Identities=16%  Similarity=0.121  Sum_probs=38.0

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          283 KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLI  345 (404)
Q Consensus       283 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li  345 (404)
                      +.-+..+-++.+....+.|++......+.+|.+.+++..|.++++-.+.+ ..+...+|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHH
Confidence            34455555566666666677777777777777777777777777766654 233344455544

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=89.01  E-value=20  Score=35.80  Aligned_cols=258  Identities=10%  Similarity=-0.021  Sum_probs=136.2

Q ss_pred             HHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHH-HhhcCCHHHHHHHHhhcccCCC-------CccHHHHHHHHH
Q 015590          100 KLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIY-GNMAGRISKAIETLFDMPSYNC-------WPSVKTFNLVLN  171 (404)
Q Consensus       100 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~m~~~~~-------~p~~~~~~~ll~  171 (404)
                      +....|+.+++..+++...... ...++..-...+.++ ...+|..+++..++.......-       .+....-..+.-
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~-~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGL  461 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGS-RASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGI  461 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTS-CCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhcccc-CCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHH
Confidence            3557788888877776543210 011122222222111 1124555567776666543210       011112222333


Q ss_pred             HHHhcCc-HhHHHHHHHHHHHcCCCCCH--hHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          172 LLVSAKL-YGEIQGIYTSAAKLGVEIDA--CCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       172 ~~~~~~~-~~~a~~~~~~~~~~g~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      +++-.|. -+++.+.+..+.... .+..  ..--+|...+.-.|+-+....++..+.+.. .-+..-..++.-++...|+
T Consensus       462 Gla~~GS~~eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          462 GLAAMGSANIEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHHSTTCCCHHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             HHHhcCCCCHHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCC
Confidence            3333332 234555555555432 1111  111233344556678777777877766532 1222223333444557889


Q ss_pred             HHHHHHHHHHHHHCCCCCCHH-HHH---HHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHH
Q 015590          249 VEEAFGLLERMESEGIDADTV-TFN---ILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKE  324 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~-~~~---~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  324 (404)
                      .+.+..+.+.+...   .+.. -|.   ++.-+|+..|+.....+++..+.... ..+......+.-++...|+.+.+.+
T Consensus       540 ~e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          540 QELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             hHHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            99999998888764   2332 232   34456788899888888999988762 1122222333334445677777888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHcCCCh-HHHHHHHHHHH
Q 015590          325 LVGRMICERMSPSFVSYKKLIHGLCNQKLV-EDVDWVLKKMV  365 (404)
Q Consensus       325 ~~~~~~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~  365 (404)
                      +++.+.+.+ .|...--.++.-+....|.. .++..++..+.
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            887776643 45555444455555555553 67888888886

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.23  E-value=5.3  Score=27.21  Aligned_cols=77  Identities=18%  Similarity=0.150  Sum_probs=36.4

Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      ..++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+.    .||...|-++..  .+.|..+++..-+.
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            34455555555544432  22222222334445555555555544444    455555555443  24555555555554


Q ss_pred             HHHHC
Q 015590          258 RMESE  262 (404)
Q Consensus       258 ~m~~~  262 (404)
                      ++..+
T Consensus        93 ~la~s   97 (115)
T 2uwj_G           93 GLGGS   97 (115)
T ss_dssp             HHHTC
T ss_pred             HHHhC
Confidence            55444

>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=87.20  E-value=6.9  Score=28.46  Aligned_cols=63  Identities=8%  Similarity=0.039  Sum_probs=47.9

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLK  206 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  206 (404)
                      |.-+..+-++.+...++.|++......+++|.+.+++..|.++++-.+..- .+...+|..++.
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            555667777777777888999999999999999999999999998887653 334555666554

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=86.83  E-value=5.7  Score=27.12  Aligned_cols=77  Identities=17%  Similarity=0.159  Sum_probs=35.2

Q ss_pred             cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Q 015590          178 LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLE  257 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  257 (404)
                      ..++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+.    .||...|-++..  .+.|..+++..-+.
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   93 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLN   93 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            34455555554444432  22222222333445555555555554444    455555554443  24455555555444


Q ss_pred             HHHHC
Q 015590          258 RMESE  262 (404)
Q Consensus       258 ~m~~~  262 (404)
                      ++..+
T Consensus        94 ~la~s   98 (116)
T 2p58_C           94 RLARS   98 (116)
T ss_dssp             HHTTC
T ss_pred             HHHhC
Confidence            44444

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.39  E-value=7.7  Score=32.00  Aligned_cols=18  Identities=17%  Similarity=0.409  Sum_probs=8.9

Q ss_pred             HHHHHhcCCchHHHHHHH
Q 015590           98 INKLAQAKRFDAIEDIMQ  115 (404)
Q Consensus        98 i~~~~~~~~~~~a~~~~~  115 (404)
                      +...++.|+++....+++
T Consensus         9 L~~A~~~g~~~~v~~Ll~   26 (285)
T 1wdy_A            9 LIKAVQNEDVDLVQQLLE   26 (285)
T ss_dssp             HHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHH
Confidence            334455556555444443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=84.92  E-value=7.2  Score=26.57  Aligned_cols=55  Identities=13%  Similarity=0.222  Sum_probs=36.1

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLN  202 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  202 (404)
                      .|++++|..+.+.+-    .||...|-.+-.  .+.|..+++...+..+...| .|....|.
T Consensus        52 rG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~Fa  106 (115)
T 2uwj_G           52 QGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLAGLGGSS-DPALADFA  106 (115)
T ss_dssp             TTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTCS-SHHHHHHH
T ss_pred             chhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            688888877776665    377777765543  46777777777776776666 44444443

>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=84.78  E-value=8.5  Score=27.95  Aligned_cols=72  Identities=10%  Similarity=-0.027  Sum_probs=36.3

Q ss_pred             CCChhhHHHHHHHHHhcCC---hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH
Q 015590          300 YPNSASYQEVLYGLLDKKR---FPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       300 ~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      .|+..+--.+..++.+..+   ..+++.+++++.+.+..-....+--+.-++.+.|++++|++..+.+.  .++|+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL--~~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF--EHERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH--TTCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH--hhCCCC
Confidence            3444444444444444433   33556666665554311122333344456666666666666666666  445543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=84.46  E-value=7.7  Score=26.50  Aligned_cols=54  Identities=9%  Similarity=0.148  Sum_probs=33.8

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCL  201 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~  201 (404)
                      .|++++|..+.+.+-    .||...|-.+-.  .+.|..+++...+..+...| .|....|
T Consensus        53 rG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~sg-~p~~q~F  106 (116)
T 2p58_C           53 RGDYASALQQGNKLA----YPDLEPWLALCE--YRLGLGSALESRLNRLARSQ-DPRIQTF  106 (116)
T ss_dssp             TTCHHHHHHHHTTSC----CGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTCC-CHHHHHH
T ss_pred             chhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHhCC-CHHHHHH
Confidence            677777777777665    377777665543  36666666666666666655 4444444

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=83.05  E-value=3.3  Score=34.27  Aligned_cols=114  Identities=13%  Similarity=0.161  Sum_probs=66.1

Q ss_pred             HHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHH----HHHHHHHHHHcC
Q 015590          276 SGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFV----SYKKLIHGLCNQ  351 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~----~~~~li~~~~~~  351 (404)
                      ....+.|++++++.....-.+.. +-|...-..++..+|-.|+++.|.+=++...+.  .|+..    .|..+|++    
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l--~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHH----
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhhHHHHHHHHHHHH----
Confidence            34567788888888887777664 336677777888888888888888887777653  34432    33333332    


Q ss_pred             CChHHHHHHHHHHHHCCCCC-----CHHhHHHHHHhhc--cCCCCcchhhHHHhhhhh
Q 015590          352 KLVEDVDWVLKKMVQQGFVP-----RMGMWREIVGCVT--FGKDNRNRVYVTETVDSL  402 (404)
Q Consensus       352 g~~~~a~~~~~~m~~~~~~p-----~~~~~~~ll~~~~--~~~~~~~~~~~~~~~~~~  402 (404)
                            +..=.++..-+-.|     ...-...++.+..  ..|+.+.+..+.+...+.
T Consensus        78 ------E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~  129 (273)
T 1zbp_A           78 ------AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  129 (273)
T ss_dssp             ------HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhc
Confidence                  12222222222222     2334455555444  356666666666655443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=81.49  E-value=24  Score=30.04  Aligned_cols=167  Identities=10%  Similarity=0.005  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHH----HHhhcccCCCCccHHHHHH
Q 015590           93 LYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIE----TLFDMPSYNCWPSVKTFNL  168 (404)
Q Consensus        93 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~----~~~~m~~~~~~p~~~~~~~  168 (404)
                      .|.++..-|.+.+++++|.+++.....                .+.+ .|+...|-+    +.+-+.+.+++++......
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~ga~----------------~ll~-~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~r   97 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQGAL----------------SFLK-AKQGGSGTDLIFYLLEVYDLAEVKVDDISVAR   97 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH----------------HHHH-TTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH----------------HHHH-CCCcchHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            344566667777777777777655321                1122 344433333    2333444566777777777


Q ss_pred             HHHHHHhcCcHh-HHHHHHHHHH----HcC--CCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          169 VLNLLVSAKLYG-EIQGIYTSAA----KLG--VEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       169 ll~~~~~~~~~~-~a~~~~~~~~----~~g--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      ++..+.....-+ .=.++.+.++    +.|  ..-++.....+...|.+.|++.+|+..|-.-.    .-|...+..++-
T Consensus        98 l~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~----~~s~~~~a~~l~  173 (312)
T 2wpv_A           98 LVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGT----HDSMIKYVDLLW  173 (312)
T ss_dssp             HHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSC----HHHHHHHHHHHH
T ss_pred             HHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCC----CccHHHHHHHHH
Confidence            776665532111 1122333333    222  12367788888999999999999888775221    124555555555


Q ss_pred             HHHHc---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          242 GLCEK---GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       242 ~~~~~---~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      -+...   |...++--...               ..+-.|.-.|+...|..+|+...
T Consensus       174 ~w~~~~~~~~~~e~dlf~~---------------RaVL~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          174 DWLCQVDDIEDSTVAEFFS---------------RLVFNYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHHHHTTCCCHHHHHHHHH---------------HHHHHHHHTTBHHHHHHHHHHHH
T ss_pred             HHHHhcCCCCcchHHHHHH---------------HHHHHHHHhcCHHHHHHHHHHHH
Confidence            44444   44443221111               12223455688888888887654

>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=80.75  E-value=12  Score=27.08  Aligned_cols=67  Identities=16%  Similarity=0.017  Sum_probs=35.0

Q ss_pred             ccHHHHHHHHHHHHhcC---cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          161 PSVKTFNLVLNLLVSAK---LYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      |+..+--...-++++..   +..+++.+++++.+.+..-.....--|.-++.+.|+++.|.+..+.+.+.
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            44444333444444444   23356666666665541122344445556666666666666666666554

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.25  E-value=14  Score=33.27  Aligned_cols=61  Identities=13%  Similarity=-0.023  Sum_probs=35.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHh
Q 015590          235 TYSTLMHGLCEKGNVEEAFGLLERMESEGIDA--DTVTFNILISGLRKQGKVEEGMKLLERMK  295 (404)
Q Consensus       235 ~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~  295 (404)
                      +...+...|.+.|++++|.+.|.++......+  -...+-..++.+...+++..+...+.+..
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~  195 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVN  195 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            45556666777777777777777666542221  23345555666666666666666666554

---

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	404
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.88
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.82
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.63
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.59
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.27
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.26
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.26
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.24
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.22
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.17
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.15
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.09
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.98
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.98
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.78
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.67
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.62
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.5
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.49
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.47
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.47
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.4
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.39
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.39
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.29
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.28
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.21
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.2
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.19
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.11
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.07
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.03
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.97
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.97
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.92
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.89
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.87
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.86
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.83
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.82
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.74
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.74
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.73
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.72
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.65
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.63
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.58
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.5
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.4
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.97
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.97
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.74
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.56
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.22
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.17
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.15
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.55
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.71
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	91.14
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.74
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.48
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	85.93

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=2.2e-19  Score=160.51  Aligned_cols=218  Identities=11%  Similarity=-0.008  Sum_probs=160.9

Q ss_pred             HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHH
Q 015590          163 VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHG  242 (404)
Q Consensus       163 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  242 (404)
                      ...+..+...+...|++++|...++...+.. +-+..++..+...+...|++++|...++.....+ +.+...+..+...
T Consensus       169 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  246 (388)
T d1w3ba_         169 AVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACV  246 (388)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHH
Confidence            3455666667777888888888888877764 4456677788888888888888888888777655 5566777778888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          243 LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       243 ~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      +.+.|++++|+..|++..+.... +..+|..+...+...|++++|...++...... +.+...+..+...+...|++++|
T Consensus       247 ~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  324 (388)
T d1w3ba_         247 YYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHH
Confidence            88888888888888887776433 56677778888888888888888888777653 34567777788888888888888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHhHHHHHHhhccCC
Q 015590          323 KELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPR-MGMWREIVGCVTFGK  387 (404)
Q Consensus       323 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~  387 (404)
                      ++.+++..+.. +-+..++..+..+|...|++++|...|++.+  .+.|+ ...|..+-.+|..-|
T Consensus       325 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al--~l~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         325 VRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAI--RISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH--TTCTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HhCCCCHHHHHHHHHHHHHcC
Confidence            88888877642 3356677778888888888888888888877  45565 445666655554433

>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=3.5e-17  Score=146.00  Aligned_cols=291  Identities=16%  Similarity=0.056  Sum_probs=236.2

Q ss_pred             CCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCC---------
Q 015590           54 DWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCR---------  124 (404)
Q Consensus        54 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~---------  124 (404)
                      +...+..+...|.+.|++++|+..|+++++..  +-+..+|..+...+.+.|++++|...+..........         
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            34567778889999999999999999998754  4567889999999999999999999888765432100         


Q ss_pred             --------------------------------------------------------CChHHHHHHHHHHHhhcCCHHHHH
Q 015590          125 --------------------------------------------------------FSDGFFYNVIKIYGNMAGRISKAI  148 (404)
Q Consensus       125 --------------------------------------------------------~~~~~~~~~l~~~~~~~g~~~~A~  148 (404)
                                                                              |.....+..+.......|++++|.
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  189 (388)
T d1w3ba_         110 ALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAI  189 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHH
Confidence                                                                    011112222233333489999999


Q ss_pred             HHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          149 ETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       149 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      ..+++..+.. +-+...|..+...+...|++++|...++...... +.+...+..+...+.+.|++++|...|++..+..
T Consensus       190 ~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  267 (388)
T d1w3ba_         190 HHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ  267 (388)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999887754 2345688899999999999999999999998876 5677888889999999999999999999988775


Q ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHH
Q 015590          229 CEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQE  308 (404)
Q Consensus       229 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~  308 (404)
                       +.+..+|..+...+...|++++|...++...... +.+...+..+...+...|++++|...|++..+.. +-+..++..
T Consensus       268 -p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  344 (388)
T d1w3ba_         268 -PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSN  344 (388)
T ss_dssp             -SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence             5677899999999999999999999999987764 3377888899999999999999999999998763 225678889


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHcCCC
Q 015590          309 VLYGLLDKKRFPEAKELVGRMICERMSP-SFVSYKKLIHGLCNQKL  353 (404)
Q Consensus       309 li~~~~~~g~~~~a~~~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  353 (404)
                      +...+.+.|++++|.+.|++..+.  .| +...|..+..+|.+.||
T Consensus       345 la~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         345 LASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTTTCCHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999999999874  45 56788889898888775

>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=99.63  E-value=4.3e-13  Score=116.47  Aligned_cols=227  Identities=15%  Similarity=0.052  Sum_probs=147.5

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH-HHHHHHH
Q 015590           60 EVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY-NVIKIYG  138 (404)
Q Consensus        60 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~~l~~~~  138 (404)
                      ..-..+.+.|++++|+..|+++++..  |.+..+|..+..++...|++++|...+.++.+..   |.+...+ .+...+.
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~---p~~~~~~~~la~~~~   98 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD--PKHMEAWQYLGTTQAENEQELLAISALRRCLELK---PDNQTALMALAVSFT   98 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc---ccccccccccccccc
Confidence            34556788999999999999998764  5568899999999999999999999999987654   3444444 4444454


Q ss_pred             hhcCCHHHHHHHHhhcccCCCCccHHH----------------HHHHHHHHHhcCcHhHHHHHHHHHHHcCC-CCCHhHH
Q 015590          139 NMAGRISKAIETLFDMPSYNCWPSVKT----------------FNLVLNLLVSAKLYGEIQGIYTSAAKLGV-EIDACCL  201 (404)
Q Consensus       139 ~~~g~~~~A~~~~~~m~~~~~~p~~~~----------------~~~ll~~~~~~~~~~~a~~~~~~~~~~g~-~~~~~~~  201 (404)
                      . .|++++|.+.+++.....  |+...                ....+..+...+.+.++...+....+... ..+..++
T Consensus        99 ~-~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~  175 (323)
T d1fcha_          99 N-ESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  175 (323)
T ss_dssp             H-TTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             c-cccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccc
Confidence            4 999999999999876533  32111                01112223344555666666666554321 2344556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          202 NILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       202 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      ..+...+...|++++|...|+...... +.+..+|..+...|.+.|++++|.+.|++..+.... +..+|..+..+|.+.
T Consensus       176 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~  253 (323)
T d1fcha_         176 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINL  253 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cHHHHHHHHHHHHHC
Confidence            666666666677777766666665543 344556666666666666666666666666554222 345566666666666


Q ss_pred             CCHHHHHHHHHHHhh
Q 015590          282 GKVEEGMKLLERMKG  296 (404)
Q Consensus       282 g~~~~a~~~~~~m~~  296 (404)
                      |++++|+..|++..+
T Consensus       254 g~~~~A~~~~~~al~  268 (323)
T d1fcha_         254 GAHREAVEHFLEALN  268 (323)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            666666666666544

>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=99.59  E-value=9.9e-13  Score=114.14  Aligned_cols=121  Identities=10%  Similarity=-0.087  Sum_probs=74.1

Q ss_pred             HHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          244 CEKGNVEEAFGLLERMESEGI-DADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      ...+.+.+|...|.+..+... .++...+..+...+...|++++|...|++..... +-+...|..+...+...|++++|
T Consensus       147 ~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A  225 (323)
T d1fcha_         147 LSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEA  225 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhH
Confidence            344455666666666554321 2244556666666667777777777777666542 11355666666667777777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          323 KELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       323 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      .+.+++..+.. +-+...|..+..+|.+.|++++|...|++.++
T Consensus       226 ~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         226 VAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777766542 22455666666777777777777777776654

>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=99.27  E-value=9.2e-10  Score=94.34  Aligned_cols=238  Identities=8%  Similarity=-0.074  Sum_probs=178.9

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcC--------------cHhHHHHHHHHHHHcCCCCCHhHHHHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAK--------------LYGEIQGIYTSAAKLGVEIDACCLNILLKGL  208 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--------------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~  208 (404)
                      ..+++..+|+++.... +-++..|..-+..+.+.+              ..+++..+|+...+...+.+...|...+..+
T Consensus        31 ~~~Rv~~vyerAl~~~-~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~  109 (308)
T d2onda1          31 ITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3567888999887642 235566766666555433              3478889999988765566777888899999


Q ss_pred             HhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHcCCCHHHH
Q 015590          209 CENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISG-LRKQGKVEEG  287 (404)
Q Consensus       209 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a  287 (404)
                      .+.|+++.|..+|+.+.+.........|...+..+.+.|+.++|..+|++..+.+.. +...|...... +...|+.+.|
T Consensus       110 ~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a  188 (308)
T d2onda1         110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHH
Confidence            999999999999999887642233457999999999999999999999999877544 33444443333 3456899999


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHHcCCChHHHHHHHHHH
Q 015590          288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICER-MSPS--FVSYKKLIHGLCNQKLVEDVDWVLKKM  364 (404)
Q Consensus       288 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m  364 (404)
                      ..+|+.+.+.. +.+...|...++.+.+.|+++.|..+|++..... ..|+  ...|...+.--...|+.+.+.++++++
T Consensus       189 ~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999998862 3357889999999999999999999999988763 3332  467888888888899999999999998


Q ss_pred             HHC-CCCCCHHhHHHHHHhh
Q 015590          365 VQQ-GFVPRMGMWREIVGCV  383 (404)
Q Consensus       365 ~~~-~~~p~~~~~~~ll~~~  383 (404)
                      .+. .-.+.......++.-|
T Consensus       268 ~~~~~~~~~~~~~~~~~~ry  287 (308)
T d2onda1         268 FTAFREEYEGKETALLVDRY  287 (308)
T ss_dssp             HHHTTTTTSSCHHHHHHTTT
T ss_pred             HHHCccccccchHHHHHHHH
Confidence            865 3333334444555444

>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=99.26  E-value=9.1e-10  Score=94.57  Aligned_cols=215  Identities=7%  Similarity=-0.018  Sum_probs=136.2

Q ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcC-CHHHHHHHHhhcccCCCCccHHHHHHH
Q 015590           91 EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAG-RISKAIETLFDMPSYNCWPSVKTFNLV  169 (404)
Q Consensus        91 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~~~~~l  169 (404)
                      ...|+.+...+.+.+.+++|.++++.+.+..   |.+...|+.........| ++++|+..+++..+.. +-+..+|+.+
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln---P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~  118 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN---AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC---CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHH
Confidence            3455556666777778888888888877654   455555544443333234 5788888888776644 2345677777


Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC-
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN-  248 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~-  248 (404)
                      ...+.+.|++++|+..++.+.+.. +.+..+|..+...+.+.|++++|...++.+.+.+ +.+..+|+.+...+.+.+. 
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHcccc
Confidence            777888888888888888887765 5567778888888888888888888888877765 5566677766666655554 


Q ss_pred             -----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCC-CChhhHHHHHHHH
Q 015590          249 -----VEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCY-PNSASYQEVLYGL  313 (404)
Q Consensus       249 -----~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~  313 (404)
                           +++|+..+.+..+.... +...|+.+...+... ..+++.+.++...+.... .+...+..+...|
T Consensus       197 ~~~~~~~~ai~~~~~al~~~P~-~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLVPH-NESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhCCC-chHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence                 46677777766655332 555565555444333 345555666555443211 1233444444444

>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=99.26  E-value=1.6e-09  Score=92.87  Aligned_cols=189  Identities=11%  Similarity=-0.017  Sum_probs=146.1

Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  221 (404)
                      +..++|..+|++..+...+.+...|...+....+.|+++.|..+|+.+.+........+|...+..+.+.|+++.|.++|
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            45678888888887654445566788888888899999999999999887643333457889999999999999999999


Q ss_pred             HHchhCCCCCcHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC-C
Q 015590          222 DEFPKQNCEPNVRTYSTLMHG-LCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKG-C  299 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~-~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~  299 (404)
                      +...+.+ +.+...|...... +...|+.+.|..+|+.+.+... .+...|...+..+...|+.+.|..+|++..... .
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p-~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYG-DIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHT-TCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhh-hhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            9988765 4444555544443 3446889999999999887632 257788999999999999999999999987763 3


Q ss_pred             CCC--hhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          300 YPN--SASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       300 ~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      .|+  ...|...+..-...|+.+.+.++++++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            443  346888888778889999999999888653

>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=99.24  E-value=1.1e-09  Score=94.13  Aligned_cols=214  Identities=11%  Similarity=0.023  Sum_probs=167.7

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHhhcccCCCCcc-HHHHHHHHHHHHhcC-cHhHHHHHHHHHHHcCCCCCHhHHHHHHHH
Q 015590          130 FYNVIKIYGNMAGRISKAIETLFDMPSYNCWPS-VKTFNLVLNLLVSAK-LYGEIQGIYTSAAKLGVEIDACCLNILLKG  207 (404)
Q Consensus       130 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  207 (404)
                      .++.+.....+.+.+++|+++++++.+.+  |+ ...|+....++...| ++++|+..++...+.. +-+..+|..+...
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            34444555555899999999999999865  54 568888888888876 5999999999998876 6678999999999


Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC----
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGK----  283 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~----  283 (404)
                      +.+.|++++|...++.+.+.. +.+..+|..+...+.+.|++++|+..|+++.+.++. +...|+.+...+.+.+.    
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh
Confidence            999999999999999999876 778999999999999999999999999999987554 67788877766666554    


Q ss_pred             --HHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHc
Q 015590          284 --VEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMS-PSFVSYKKLIHGLCN  350 (404)
Q Consensus       284 --~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~~~~~~~li~~~~~  350 (404)
                        +++|...+....+.. +-+...|..+...+. ....+++.+.++...+.... .+...+..+...|..
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence              678999998888763 225666766655544 44568888888888764322 245566666666654

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=99.22  E-value=1e-08  Score=88.94  Aligned_cols=269  Identities=11%  Similarity=-0.013  Sum_probs=160.9

Q ss_pred             HHHhcCCChhHHHHHHHHHhhCCCCCCC---HHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh---HHHHHHHHH
Q 015590           63 KIFSNLRDPISVISVLNQYSKRKDYNPN---EALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD---GFFYNVIKI  136 (404)
Q Consensus        63 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~~l~~  136 (404)
                      ..+...|++++|+.+|++.+...+-.++   ...+..+...+...|++++|...++..........+.   ......+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            4567789999999999988765321111   2456677788888999999999998865432111111   111222223


Q ss_pred             HHhhcCCHHHHHHHHhhccc----CC--CCcc-HHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCC----CCCHhHHHHHH
Q 015590          137 YGNMAGRISKAIETLFDMPS----YN--CWPS-VKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGV----EIDACCLNILL  205 (404)
Q Consensus       137 ~~~~~g~~~~A~~~~~~m~~----~~--~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~----~~~~~~~~~li  205 (404)
                      .+...|++..+...+.+...    .+  ..+. ...+..+...+...|+++.+...+........    ......+....
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  179 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  179 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHH
Confidence            33337888888777765432    11  1111 23455566677778888888888777765421    22234455556


Q ss_pred             HHHHhcCChHHHHHHHHHchh----CCCCC--cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPK----QNCEP--NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDA---DTVTFNILIS  276 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~----~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p---~~~~~~~li~  276 (404)
                      ..+...++...+...+.+...    .+..+  ....+......+...|++++|...+++........   ....+..+..
T Consensus       180 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~  259 (366)
T d1hz4a_         180 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  259 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH
Confidence            667777777777776665432    11111  12344555666777778888877777665432221   2234555667


Q ss_pred             HHHcCCCHHHHHHHHHHHhhC----CCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHH
Q 015590          277 GLRKQGKVEEGMKLLERMKGK----GCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMIC  331 (404)
Q Consensus       277 ~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  331 (404)
                      .+...|++++|...+++....    +..|+ ...+..+...|.+.|++++|.+.+++..+
T Consensus       260 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         260 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            777778888877777766432    22332 34566666777777777777777776643

>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=99.17  E-value=1.9e-08  Score=87.16  Aligned_cols=299  Identities=11%  Similarity=0.054  Sum_probs=203.0

Q ss_pred             HHHHHHHHHhcCCchHHHHHHHHHHhcccCCCCh--HHHHHHHHHHHhhcCCHHHHHHHHhhcccC----CCCcc-HHHH
Q 015590           94 YTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSD--GFFYNVIKIYGNMAGRISKAIETLFDMPSY----NCWPS-VKTF  166 (404)
Q Consensus        94 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~  166 (404)
                      .......+...|++++|.++++.........++.  ......+...+...|++++|+..|++..+.    +..+. ...+
T Consensus        15 ~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   94 (366)
T d1hz4a_          15 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   94 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            3344566789999999999999986543111111  122333444444489999999999987542    11111 2356


Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHc----CCCC---CHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CCCCcHHH
Q 015590          167 NLVLNLLVSAKLYGEIQGIYTSAAKL----GVEI---DACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NCEPNVRT  235 (404)
Q Consensus       167 ~~ll~~~~~~~~~~~a~~~~~~~~~~----g~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~~~  235 (404)
                      ..+...+...|++..+...+......    +.+.   ....+..+...+...|+++.+...+......    +......+
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            66777888999999999998877642    2121   1235566778899999999999999877643    22334456


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCC---hhhH
Q 015590          236 YSTLMHGLCEKGNVEEAFGLLERMESE----GIDA--DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPN---SASY  306 (404)
Q Consensus       236 ~~~li~~~~~~~~~~~A~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~  306 (404)
                      +......+...++..++...+.+....    +..+  ....+..+...+...|++++|...++.........+   ...+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            667777888999999999888776542    1111  123456667778899999999999998876532222   3455


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHHC----CCCC----CH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICE----RMSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ----GFVP----RM  373 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p----~~  373 (404)
                      ..+...+...|++++|.+.++.....    +..|+ ...+..+..+|...|++++|.+.+++..+.    |...    ..
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~  334 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEG  334 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHH
Confidence            66788899999999999999987642    33443 356777889999999999999999987642    3321    12


Q ss_pred             HhHHHHHHhhccCCCCcch
Q 015590          374 GMWREIVGCVTFGKDNRNR  392 (404)
Q Consensus       374 ~~~~~ll~~~~~~~~~~~~  392 (404)
                      ..+..++..+...+..+++
T Consensus       335 ~~~~~~~~~l~~~~~l~e~  353 (366)
T d1hz4a_         335 EAMAQQLRQLIQLNTLPEL  353 (366)
T ss_dssp             HHHHHHHHHHHHTTCSCHH
T ss_pred             HHHHHHHHHHHhcCCChHH
Confidence            2344555555555554444

>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=99.15  E-value=5.6e-10  Score=93.03  Aligned_cols=199  Identities=14%  Similarity=0.015  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      .+|..+...|.+.|++++|++.|++..+.. |-+..+|..+..+|.+.|++++|...|++..+.. +.+..+|..+...|
T Consensus        38 ~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          38 QLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHH
Confidence            466667777888888888888888887765 5567778888888888888888888888877764 44566777788888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHH
Q 015590          244 CEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAK  323 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  323 (404)
                      ...|++++|...|+...+.... +......+...+.+.+..+.+..+........  ++...++ ++..+.  +..... 
T Consensus       116 ~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~--~~~~~~-  188 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD--KEQWGWN-IVEFYL--GNISEQ-  188 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC--CCSTHHH-HHHHHT--TSSCHH-
T ss_pred             HHHhhHHHHHHHHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc--hhhhhhh-HHHHHH--HHHHHH-
Confidence            8888888888888887765322 33333334444455555555555555554432  1211222 222222  221111 


Q ss_pred             HHHHHHHHCC-----CCCC-HHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH
Q 015590          324 ELVGRMICER-----MSPS-FVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRM  373 (404)
Q Consensus       324 ~~~~~~~~~~-----~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  373 (404)
                      ..+.......     ..|+ ..+|..+...|...|++++|.+.|++.+  ...|+.
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al--~~~p~~  242 (259)
T d1xnfa_         189 TLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAV--ANNVHN  242 (259)
T ss_dssp             HHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH--TTCCTT
T ss_pred             HHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHH--HcCCCC
Confidence            1111111110     1121 2356667788888888999988888887  455654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.09  E-value=5.1e-10  Score=97.21  Aligned_cols=231  Identities=9%  Similarity=-0.079  Sum_probs=158.4

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHcCCCCCHhHHH-HHHHHHHhcCChHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAK--LYGEIQGIYTSAAKLGVEIDACCLN-ILLKGLCENGNLEAA  217 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~~~~~g~~~~a  217 (404)
                      .|++++|+..++.....+ +.+...|..+..++...+  +++++...+..+.+.. +++...+. .....+...+.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHH
Confidence            455778888888877654 235567777777766665  4788888888888774 44555544 444677778889999


Q ss_pred             HHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhC
Q 015590          218 FYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       218 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      ...++...+.+ +-+..+|+.+...+.+.|++++|...+....+.  .|+  . ......+...+..+++...+......
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~--~-~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK--E-LELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH--H-HHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH--H-HHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            99999888876 667888888888888888888776555443332  111  1 12233344556666777777777665


Q ss_pred             CCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-hH
Q 015590          298 GCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG-MW  376 (404)
Q Consensus       298 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~  376 (404)
                      . .++...+..+...+...|+.++|...+.+..+.. +.+...+..+..++...|+.++|.+.+++..+  +.|+.. -|
T Consensus       238 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~~~~y~  313 (334)
T d1dcea1         238 R-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPMRAAYL  313 (334)
T ss_dssp             C-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGGGHHHH
T ss_pred             C-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcccHHHH
Confidence            3 3345566666777777888899999888886542 22446777788888899999999999999885  567543 44


Q ss_pred             HHHHHhh
Q 015590          377 REIVGCV  383 (404)
Q Consensus       377 ~~ll~~~  383 (404)
                      +.|-..+
T Consensus       314 ~~L~~~~  320 (334)
T d1dcea1         314 DDLRSKF  320 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5444433

>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=98.98  E-value=5.8e-08  Score=80.37  Aligned_cols=184  Identities=12%  Similarity=-0.065  Sum_probs=92.8

Q ss_pred             cCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHH
Q 015590          141 AGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYV  220 (404)
Q Consensus       141 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~  220 (404)
                      .|++++|++.|++..+.. +-++.+|+.+..++.+.|++++|+..|+++.+.. +.+..++..+..+|...|++++|...
T Consensus        50 ~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~  127 (259)
T d1xnfa_          50 LGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDD  127 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHH
Confidence            566666666666655532 1234566666666666666666666666666654 33455566666666666666666666


Q ss_pred             HHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH----HHHHHHHHHHhh
Q 015590          221 LDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKV----EEGMKLLERMKG  296 (404)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~  296 (404)
                      |+...+.. +.+......+..++.+.+..+.+..+.........  +...++ ++..+......    +.+...+.....
T Consensus       128 ~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (259)
T d1xnfa_         128 LLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK--EQWGWN-IVEFYLGNISEQTLMERLKADATDNTS  203 (259)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC--CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHH
T ss_pred             HHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch--hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            66665543 33343333344444444544444444444443321  111121 12222211111    111111111111


Q ss_pred             CCCCC-ChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          297 KGCYP-NSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       297 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      .  .| ...+|..+...+...|++++|.+.|+.....
T Consensus       204 ~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         204 L--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             H--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             c--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            0  11 1234555666777777777777777777654

>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=98.98  E-value=3.1e-09  Score=92.07  Aligned_cols=274  Identities=8%  Similarity=-0.102  Sum_probs=189.3

Q ss_pred             HHHHHHHhcCCChhHHHHHHHHHhhCCCCCCC-HHHHHHHHHH----------HHhcCCchHHHHHHHHHHhcccCCCCh
Q 015590           59 TEVLKIFSNLRDPISVISVLNQYSKRKDYNPN-EALYTLIINK----------LAQAKRFDAIEDIMQRIKVEKLCRFSD  127 (404)
Q Consensus        59 ~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~li~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~  127 (404)
                      ..++......+..++|+.+++..++.   .|+ ...|+..-..          +...|++++|..+++.+....   |.+
T Consensus        33 ~~~~~~~~~~~~~~~al~~~~~~l~~---~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~---pk~  106 (334)
T d1dcea1          33 QAVFQKRQAGELDESVLELTSQILGA---NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN---PKS  106 (334)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC---TTC
T ss_pred             HHHHHHHhcccccHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC---CCc
Confidence            34444444444568999999999875   454 3444333322          223445788999999887654   444


Q ss_pred             HHHHH-HHHHHHh-hcCCHHHHHHHHhhcccCCCCccHHHHH-HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHH
Q 015590          128 GFFYN-VIKIYGN-MAGRISKAIETLFDMPSYNCWPSVKTFN-LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNIL  204 (404)
Q Consensus       128 ~~~~~-~l~~~~~-~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  204 (404)
                      ...+. ....+.. ..+++++|...+.+..... +++...+. .....+...+.+++|+..++.+.+.. +-+...|+.+
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l  184 (334)
T d1dcea1         107 YGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYR  184 (334)
T ss_dssp             HHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            44433 3333333 2456899999999987754 23455554 44467777899999999999998876 5678899999


Q ss_pred             HHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKV  284 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  284 (404)
                      ...+.+.|++++|...+....+.  .|+   .......+...+..+++...+........ ++...+..+...+...|+.
T Consensus       185 ~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~-~~~~~~~~l~~~~~~~~~~  258 (334)
T d1dcea1         185 SCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRA-EPLFRCELSVEKSTVLQSE  258 (334)
T ss_dssp             HHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCC-CCSSSCCCCHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCc-chhhHHHHHHHHHHHHhhH
Confidence            99999999999887666655433  121   12233445667778888888888776643 3455666677777888999


Q ss_pred             HHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Q 015590          285 EEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPS-FVSYKKLIHGLC  349 (404)
Q Consensus       285 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~-~~~~~~li~~~~  349 (404)
                      ++|...+.+..... +-+...+..+...+...|+.++|.+.++...+.  .|+ ...|..+...+.
T Consensus       259 ~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         259 LESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHHh
Confidence            99999999888773 124567788888999999999999999999885  564 345555544444

>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=98.78  E-value=6.2e-07  Score=70.35  Aligned_cols=129  Identities=12%  Similarity=-0.012  Sum_probs=95.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh
Q 015590          131 YNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE  210 (404)
Q Consensus       131 ~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~  210 (404)
                      |+-...+.. .|++++|++.|.++..    |+..+|..+..++...|++++|++.|++.++.. +.+...|..+..+|.+
T Consensus         9 ~~~g~~~~~-~~d~~~Al~~~~~i~~----~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~   82 (192)
T d1hh8a_           9 WNEGVLAAD-KKDWKGALDAFSAVQD----PHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   82 (192)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHTSSS----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHhcCC----CCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHh
Confidence            343334444 8999999999988643    677888889999999999999999999999886 6678889999999999


Q ss_pred             cCChHHHHHHHHHchhCC------------CC--C-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 015590          211 NGNLEAAFYVLDEFPKQN------------CE--P-NVRTYSTLMHGLCEKGNVEEAFGLLERMESEGID  265 (404)
Q Consensus       211 ~g~~~~a~~~~~~~~~~~------------~~--~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~  265 (404)
                      .|++++|.+.|+......            ..  + ...++..+..++.+.|++++|.+.|....+....
T Consensus        83 ~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          83 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             hccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            999999999888865421            00  0 1234445566677777777777777766655333

>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=98.67  E-value=1.4e-06  Score=68.19  Aligned_cols=124  Identities=7%  Similarity=-0.128  Sum_probs=87.6

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ...+...|+++.|++.|..+    .+|+..+|..+..+|...|++++|.+.|++..+.+ +.+...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            44566778888888888754    25677778888888888888888888888887766 56677888888888888888


Q ss_pred             HHHHHHHHHHHHCCCC--------------CC-HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCC
Q 015590          250 EEAFGLLERMESEGID--------------AD-TVTFNILISGLRKQGKVEEGMKLLERMKGKG  298 (404)
Q Consensus       250 ~~A~~~~~~m~~~~~~--------------p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  298 (404)
                      ++|+..|++.......              ++ ..++..+..++.+.|++++|.+.+.......
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            8888888876543111              00 1334455666677777777777777666553

>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=98.62  E-value=2.4e-06  Score=71.80  Aligned_cols=60  Identities=5%  Similarity=-0.044  Sum_probs=27.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHhhCC---CCCC-CHHHHHHHHHHHHhcCCchHHHHHHHHH
Q 015590           58 PTEVLKIFSNLRDPISVISVLNQYSKRK---DYNP-NEALYTLIINKLAQAKRFDAIEDIMQRI  117 (404)
Q Consensus        58 ~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~  117 (404)
                      |..+...|...|++++|+..|.++..-.   +-++ -..+|..+..+|.+.|++++|...++..
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a  103 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENA  103 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHh
Confidence            3444445555555555555555554310   0011 1234455555555555555555555543

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.56  E-value=1.9e-06  Score=61.42  Aligned_cols=88  Identities=16%  Similarity=0.023  Sum_probs=39.2

Q ss_pred             HHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHH
Q 015590          172 LLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEE  251 (404)
Q Consensus       172 ~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  251 (404)
                      .+.+.|++++|+..|++.++.. |.+...|..+..+|.+.|++++|...+....+.+ +.+...|..+..++...|++++
T Consensus        12 ~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          12 KALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            3444444444444444444432 3334444444444444444444444444444433 3344444444444444444444


Q ss_pred             HHHHHHHHHH
Q 015590          252 AFGLLERMES  261 (404)
Q Consensus       252 A~~~~~~m~~  261 (404)
                      |+..|++..+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            4444444443

>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=98.50  E-value=5.1e-06  Score=69.68  Aligned_cols=197  Identities=12%  Similarity=-0.028  Sum_probs=120.8

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHc----CCCC-CHhHHHHHHHHHHhcCChHHHHHHHHHchhC----CC-CCcHHHHHH
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKL----GVEI-DACCLNILLKGLCENGNLEAAFYVLDEFPKQ----NC-EPNVRTYST  238 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~----g~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~  238 (404)
                      ....|...+++++|.+.|.+..+.    +-++ -..+|..+..+|.+.|++++|...++...+.    |- .....++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            455677778888888887776543    1111 2356777788888888888888887765432    10 111334555


Q ss_pred             HHHHHHH-cCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCCh------hhH
Q 015590          239 LMHGLCE-KGNVEEAFGLLERMESE----GIDA-DTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNS------ASY  306 (404)
Q Consensus       239 li~~~~~-~~~~~~A~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~------~~~  306 (404)
                      +...|.. .|++++|+..|++..+.    +..+ -..++..+...+...|++++|...|++..........      ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            5666644 58888888888876431    2111 1345677788888889999999998887765211111      123


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCC-CC---HHHHHHHHHHHHc--CCChHHHHHHHHHHH
Q 015590          307 QEVLYGLLDKKRFPEAKELVGRMICERMS-PS---FVSYKKLIHGLCN--QKLVEDVDWVLKKMV  365 (404)
Q Consensus       307 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~-p~---~~~~~~li~~~~~--~g~~~~a~~~~~~m~  365 (404)
                      ...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|...|+.+.
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~  267 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            34444566788899999888888764211 11   2344556666554  234677777766543

>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=98.49  E-value=1.6e-06  Score=68.28  Aligned_cols=99  Identities=19%  Similarity=0.084  Sum_probs=77.3

Q ss_pred             ccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHH
Q 015590          161 PSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLM  240 (404)
Q Consensus       161 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  240 (404)
                      |+...+......+.+.|++++|+..|+..++.. |.+...|..+..+|.+.|++++|...|+...+.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            666667777788888888888888888877765 5677778888888888888888888888887664 44667788888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 015590          241 HGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       241 ~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      .+|.+.|++++|+..|++..+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            888888888888888887654

>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=98.47  E-value=3.8e-06  Score=63.45  Aligned_cols=91  Identities=14%  Similarity=0.042  Sum_probs=50.5

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH
Q 015590          170 LNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV  249 (404)
Q Consensus       170 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  249 (404)
                      ...+.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...|+...+.. +.+..+|..+..+|...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            344555555555555555555554 4455555555555555555555555555555443 34445555555555555555


Q ss_pred             HHHHHHHHHHHHC
Q 015590          250 EEAFGLLERMESE  262 (404)
Q Consensus       250 ~~A~~~~~~m~~~  262 (404)
                      ++|...|++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            5555555555544

>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=98.47  E-value=3.6e-06  Score=59.91  Aligned_cols=91  Identities=18%  Similarity=0.100  Sum_probs=59.1

Q ss_pred             HHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKV  284 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  284 (404)
                      .+.+.+.|++++|...|++..+.. +.+...|..+..+|...|++++|+..+.+..+.+.. +...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCH
Confidence            455666677777777776666554 555666666666666777777777776666655433 556666666666666666


Q ss_pred             HHHHHHHHHHhhC
Q 015590          285 EEGMKLLERMKGK  297 (404)
Q Consensus       285 ~~a~~~~~~m~~~  297 (404)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666666655

>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=98.40  E-value=2.5e-06  Score=67.20  Aligned_cols=100  Identities=13%  Similarity=-0.055  Sum_probs=84.7

Q ss_pred             CCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 015590          196 IDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILI  275 (404)
Q Consensus       196 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li  275 (404)
                      |+...+....+.|.+.|++++|...|....+.. |.+...|+.+..+|.+.|++++|+..|++..+.... +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            566667778889999999999999999887776 678888999999999999999999999998876433 567888899


Q ss_pred             HHHHcCCCHHHHHHHHHHHhhC
Q 015590          276 SGLRKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       276 ~~~~~~g~~~~a~~~~~~m~~~  297 (404)
                      .+|...|++++|...|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999987653

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.39  E-value=4.2e-06  Score=63.25  Aligned_cols=91  Identities=12%  Similarity=0.017  Sum_probs=55.7

Q ss_pred             HHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCH
Q 015590          205 LKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKV  284 (404)
Q Consensus       205 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  284 (404)
                      .+.|.+.|++++|...|++..+.. +.+...|..+...|...|++++|+..|++..+.... +..+|..+..++...|++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcCCH
Confidence            445566666666666666666554 455566666666666666666666666666554322 445566666666666666


Q ss_pred             HHHHHHHHHHhhC
Q 015590          285 EEGMKLLERMKGK  297 (404)
Q Consensus       285 ~~a~~~~~~m~~~  297 (404)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>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=98.39  E-value=0.00033  Score=57.26  Aligned_cols=114  Identities=13%  Similarity=-0.037  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHh----cCChh
Q 015590          249 VEEAFGLLERMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLD----KKRFP  320 (404)
Q Consensus       249 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~  320 (404)
                      ...+...+......   .+...+..+...|..    ..+...+...++...+.|   +......+-..|..    ..+.+
T Consensus       126 ~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         126 FKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             HHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             hHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchh
Confidence            34444444443332   133444444444443    334445555555555443   33333334333333    34566


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCChHHHHHHHHHHHHCCCCC
Q 015590          321 EAKELVGRMICERMSPSFVSYKKLIHGLCN----QKLVEDVDWVLKKMVQQGFVP  371 (404)
Q Consensus       321 ~a~~~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p  371 (404)
                      +|...|....+.|   +...+..|...|.+    ..+.++|.+.|++..+.|..+
T Consensus       200 ~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         200 EALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             hhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            6666666665544   33344444444443    335666666666666555443

>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=98.29  E-value=0.00057  Score=55.76  Aligned_cols=226  Identities=12%  Similarity=-0.005  Sum_probs=133.0

Q ss_pred             CHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHh---hcCCHHHHHHHHhhcccCCCCccHHHH
Q 015590           90 NEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGN---MAGRISKAIETLFDMPSYNCWPSVKTF  166 (404)
Q Consensus        90 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~A~~~~~~m~~~~~~p~~~~~  166 (404)
                      |+..+..|...+-+.+++++|.+.|++..+.+    +....+.+-..+..   ...+...|...+......+   +....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g----~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~   73 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK----ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   73 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchh
Confidence            34455566666666777777777777765543    22223333222221   1346777777777666544   22333


Q ss_pred             HHHHHHHHh----cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHh----cCChHHHHHHHHHchhCCCCCcHHHHHH
Q 015590          167 NLVLNLLVS----AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCE----NGNLEAAFYVLDEFPKQNCEPNVRTYST  238 (404)
Q Consensus       167 ~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  238 (404)
                      ..+...+..    ..+.+.|...++...+.|.   ......+...+..    ......+...+......   .+...+..
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            333333332    3466677777777776652   1222223333332    33456666666665553   35566666


Q ss_pred             HHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----CCCHHHHHHHHHHHhhCCCCCChhhHHHHH
Q 015590          239 LMHGLCE----KGNVEEAFGLLERMESEGIDADTVTFNILISGLRK----QGKVEEGMKLLERMKGKGCYPNSASYQEVL  310 (404)
Q Consensus       239 li~~~~~----~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  310 (404)
                      +...|..    ..+...+...++...+.|   +......+...|..    ..+.++|...|+...+.|   ++..+..|.
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            7777665    345667777777776654   45555555555544    467888999998888876   455666666


Q ss_pred             HHHHh----cCChhHHHHHHHHHHHCCC
Q 015590          311 YGLLD----KKRFPEAKELVGRMICERM  334 (404)
Q Consensus       311 ~~~~~----~g~~~~a~~~~~~~~~~~~  334 (404)
                      ..|.+    ..+.++|.+.|++..+.|.
T Consensus       222 ~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         222 AMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            66654    3478889999888877663

>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=98.28  E-value=5e-06  Score=58.57  Aligned_cols=88  Identities=11%  Similarity=0.004  Sum_probs=48.3

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCC
Q 015590          169 VLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGN  248 (404)
Q Consensus       169 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~  248 (404)
                      +...+.+.|++++|+..|++..+.. |-+..+|..+..++.+.|++++|...|+...+.. +.+..+|..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCC
Confidence            3444555555555555555555543 3345555555555555555555555555555443 3445555555555555555


Q ss_pred             HHHHHHHHHH
Q 015590          249 VEEAFGLLER  258 (404)
Q Consensus       249 ~~~A~~~~~~  258 (404)
                      +++|++.|++
T Consensus       100 ~~~A~~~l~~  109 (112)
T d1hxia_         100 ANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555555554

>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=5.9e-06  Score=58.20  Aligned_cols=86  Identities=12%  Similarity=0.071  Sum_probs=39.5

Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVE  285 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  285 (404)
                      ..+.+.|++++|...|++..+.. +-+..+|..+..++.+.|++++|+..|++..+.... +...|..+...|...|+.+
T Consensus        24 ~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~~~  101 (112)
T d1hxia_          24 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHNAN  101 (112)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCCHH
Confidence            33444455555555555444433 233444444444455555555555555444443222 3344444444444444444


Q ss_pred             HHHHHHHH
Q 015590          286 EGMKLLER  293 (404)
Q Consensus       286 ~a~~~~~~  293 (404)
                      +|.+.+++
T Consensus       102 ~A~~~l~~  109 (112)
T d1hxia_         102 AALASLRA  109 (112)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>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=4.9e-06  Score=59.50  Aligned_cols=94  Identities=16%  Similarity=0.097  Sum_probs=43.9

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCCh---HHHHHHHHHchhCCCCCc-HHHHHHHHHHH
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNL---EAAFYVLDEFPKQNCEPN-VRTYSTLMHGL  243 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~~~~~~~~~~-~~~~~~li~~~  243 (404)
                      .+++.+...+++++|++.|+...+.+ +.+..++..+..++.+.++.   ++|..+|+++...+..|+ ..+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34444555555555555555555544 34444555555555443322   235555555444321111 12344445555


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 015590          244 CEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       244 ~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+.|++++|...|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            5555555555555555443

>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=98.19  E-value=1.3e-05  Score=57.24  Aligned_cols=94  Identities=14%  Similarity=0.068  Sum_probs=57.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCH---HHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 015590          203 ILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNV---EEAFGLLERMESEGIDADT-VTFNILISGL  278 (404)
Q Consensus       203 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~---~~A~~~~~~m~~~~~~p~~-~~~~~li~~~  278 (404)
                      .+++.+...+++++|++.|+...+.+ +.+..++..+..++.+.++.   ++|+.+|+++...+..|+. .+|..+..+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45566666666777777776666655 55666666666666654433   3466666666655433332 2455666666


Q ss_pred             HcCCCHHHHHHHHHHHhhC
Q 015590          279 RKQGKVEEGMKLLERMKGK  297 (404)
Q Consensus       279 ~~~g~~~~a~~~~~~m~~~  297 (404)
                      .+.|++++|.+.|+++.+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6677777777777766665

>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=98.11  E-value=0.0018  Score=54.41  Aligned_cols=272  Identities=10%  Similarity=0.007  Sum_probs=148.3

Q ss_pred             cCCCCCHHHHHHHHhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHH
Q 015590           52 HKDWLSPTEVLKIFSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFY  131 (404)
Q Consensus        52 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  131 (404)
                      .||..--..+...|.+.|.++.|..+|..+. .         |..++..+.+.++++.|.++.....       +..++.
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-d---------~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k   73 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-N---------FGRLASTLVHLGEYQAAVDGARKAN-------STRTWK   73 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT-C---------HHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-C---------HHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHH
Confidence            3444444566777888899999999998762 2         6678888889999998888876541       233444


Q ss_pred             HHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhc
Q 015590          132 NVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCEN  211 (404)
Q Consensus       132 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~  211 (404)
                      .....+.. ......|.-     ...+...++.....++..|-..|.+++...+++...... ..+...++-++..|++.
T Consensus        74 ~~~~~l~~-~~e~~la~i-----~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_          74 EVCFACVD-GKEFRLAQM-----CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             HHHHHHHH-TTCHHHHHH-----TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHh-CcHHHHHHH-----HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHh
Confidence            44444443 554444322     122223455556678888899999999999998876442 56777888899988886


Q ss_pred             CChHHHHHHHHHchhCCCCCc--------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCC
Q 015590          212 GNLEAAFYVLDEFPKQNCEPN--------VRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGK  283 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~--------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  283 (404)
                      + .++..+.+...... +.+.        ...|..++-.|.+.|++++|..+.   .+.  .++.......+..+.+.++
T Consensus       147 ~-~~kl~e~l~~~s~~-y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N  219 (336)
T d1b89a_         147 K-PQKMREHLELFWSR-VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVAN  219 (336)
T ss_dssp             C-HHHHHHHHHHHSTT-SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSS
T ss_pred             C-hHHHHHHHHhcccc-CCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCC
Confidence            5 34444444332110 1111        112344555555555555554432   111  2233333445566666666


Q ss_pred             HHHHHHHHHHHhhCCCCCChhhHHH-------------HHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 015590          284 VEEGMKLLERMKGKGCYPNSASYQE-------------VLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCN  350 (404)
Q Consensus       284 ~~~a~~~~~~m~~~~~~p~~~~~~~-------------li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~  350 (404)
                      ++...++.....+.  .|  ...+.             ++..+.+.+++.....+++.....|   +....+++...|..
T Consensus       220 ~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie  292 (336)
T d1b89a_         220 VELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFIT  292 (336)
T ss_dssp             THHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhC
Confidence            66666655555443  22  22233             3444455555555556665554433   44677888888888


Q ss_pred             CCChHHHHHHH
Q 015590          351 QKLVEDVDWVL  361 (404)
Q Consensus       351 ~g~~~~a~~~~  361 (404)
                      .++++.-++..
T Consensus       293 ~~d~~~l~~~i  303 (336)
T d1b89a_         293 EEDYQALRTSI  303 (336)
T ss_dssp             TTCHHHHHHHH
T ss_pred             cchhHHHHHHH
Confidence            88865544444

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.07  E-value=0.0017  Score=54.60  Aligned_cols=272  Identities=12%  Similarity=0.069  Sum_probs=156.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCHHHHHHHHhhcccCCCCccHHHHH
Q 015590           88 NPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRISKAIETLFDMPSYNCWPSVKTFN  167 (404)
Q Consensus        88 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  167 (404)
                      .|+..-...+...|-+.|.++.|..+|..+..          +..++..+.. .++++.|.+.+.+..      +..+|.
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d----------~~rl~~~~v~-l~~~~~avd~~~k~~------~~~~~k   73 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN----------FGRLASTLVH-LGEYQAAVDGARKAN------STRTWK   73 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC----------HHHHHHHHHT-TTCHHHHHHHHHHHT------CHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC----------HHHHHHHHHh-hccHHHHHHHHHHcC------CHHHHH
Confidence            45666667788889999999999999988632          3345555554 889999999887653      456888


Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcC
Q 015590          168 LVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKG  247 (404)
Q Consensus       168 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~  247 (404)
                      .+...|.+......+     .+.......+......++..|-..|.++....+++...... +.+...++.++..|++.+
T Consensus        74 ~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_          74 EVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC
Confidence            889888887766543     23333344566667789999999999999999999876543 567778899999998865


Q ss_pred             CHHHHHHHHHHHHHCCCCCC--------HHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCCh
Q 015590          248 NVEEAFGLLERMESEGIDAD--------TVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRF  319 (404)
Q Consensus       248 ~~~~A~~~~~~m~~~~~~p~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  319 (404)
                       .++..+.++.... ...+.        ...|.-++-.|.+.|++++|..+.   .+.  .++..-....+..+.+.++.
T Consensus       148 -~~kl~e~l~~~s~-~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~  220 (336)
T d1b89a_         148 -PQKMREHLELFWS-RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANV  220 (336)
T ss_dssp             -HHHHHHHHHHHST-TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSST
T ss_pred             -hHHHHHHHHhccc-cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCCh
Confidence             3444444433311 11111        011334444455555555444332   111  22333334455556666666


Q ss_pred             hHHHHHHHHHHHCCCCCCHH-----------HHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHhHHHHHHhhccCCC
Q 015590          320 PEAKELVGRMICERMSPSFV-----------SYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMGMWREIVGCVTFGKD  388 (404)
Q Consensus       320 ~~a~~~~~~~~~~~~~p~~~-----------~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  388 (404)
                      +...++.....+.  .|+..           .-..++..+-+.+++.-...+++...+.|   +..+.++|...|...++
T Consensus       221 e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d  295 (336)
T d1b89a_         221 ELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEED  295 (336)
T ss_dssp             HHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcch
Confidence            6666555555442  23211           01334555566666666666776665544   34678888888888777


Q ss_pred             Ccchhh
Q 015590          389 NRNRVY  394 (404)
Q Consensus       389 ~~~~~~  394 (404)
                      .+....
T Consensus       296 ~~~l~~  301 (336)
T d1b89a_         296 YQALRT  301 (336)
T ss_dssp             HHHHHH
T ss_pred             hHHHHH
Confidence            544433

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.03  E-value=0.00013  Score=55.43  Aligned_cols=62  Identities=11%  Similarity=-0.076  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +|+.+..+|.+.|++++|+..++...+.+ |.+..+|..+..+|...|++++|+..|++..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            34444555555555555555555555443 334555555555555555555555555555443

>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=97.97  E-value=2.4e-06  Score=77.60  Aligned_cols=134  Identities=9%  Similarity=-0.082  Sum_probs=58.3

Q ss_pred             CcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Q 015590          177 KLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLL  256 (404)
Q Consensus       177 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  256 (404)
                      +.++.++..+....+.. +++...+..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            33444444433333222 2344455556666666666666665554443211   1234555666666667777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc
Q 015590          257 ERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK  316 (404)
Q Consensus       257 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  316 (404)
                      ++..+.... +...|+.+...+...|+..+|...|.+..... .|-..++..|...+.+.
T Consensus       176 ~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         176 RHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            666655322 44566667666767777777777776666553 34555666666655443

>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=97.97  E-value=5.5e-05  Score=54.43  Aligned_cols=53  Identities=15%  Similarity=0.196  Sum_probs=22.7

Q ss_pred             HHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          206 KGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       206 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      +.|.+.|++++|...|.+..+.+ +.+..+|..+..+|.+.|++++|+..++++
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            33444444444444444444333 333444444444444444444444444443

>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=97.92  E-value=0.00016  Score=54.77  Aligned_cols=80  Identities=9%  Similarity=-0.073  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      .+|+.+..+|.+.|++++|+..++..++.. |.++.++..+..+|...|++++|...|+...+.. |-+......+-...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            467778888999999999999999999886 6688899999999999999999999999998764 33555555544443


Q ss_pred             HH
Q 015590          244 CE  245 (404)
Q Consensus       244 ~~  245 (404)
                      .+
T Consensus       141 ~~  142 (170)
T d1p5qa1         141 QR  142 (170)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=97.89  E-value=0.00012  Score=52.66  Aligned_cols=96  Identities=11%  Similarity=0.114  Sum_probs=64.2

Q ss_pred             HHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCc-------HHHHH
Q 015590          165 TFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPN-------VRTYS  237 (404)
Q Consensus       165 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~~~~  237 (404)
                      .+..+...+.+.|++++|+..|++.++.. |.+...+..+..+|.+.|++++|...++.+.+.. +.+       ..+|.
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~-~~~~~~~~~~a~~~~   83 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG-RENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-HHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34456667777777777777777777765 4567777777777777788887777777765431 111       13455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          238 TLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       238 ~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+...+...+++++|+..|++....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            5666666777777777777765543

>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=97.87  E-value=0.00042  Score=51.33  Aligned_cols=62  Identities=23%  Similarity=0.088  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +|..+..+|.+.|++++|.+.++...+.+ |.+..+|..+..++...|++++|+..|++..+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44445555555555555555555555443 445555555555555555555555555555544

>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=97.86  E-value=0.00018  Score=55.01  Aligned_cols=58  Identities=12%  Similarity=0.141  Sum_probs=27.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERM  259 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  259 (404)
                      +..+...+.+.|++++|...++.+.+.. +.+...|..++.+|.+.|+.++|++.|+++
T Consensus        70 ~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          70 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            3344444444444444444444444433 344444444444444444444444444443

>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=97.83  E-value=0.0003  Score=53.69  Aligned_cols=120  Identities=12%  Similarity=0.016  Sum_probs=83.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhc
Q 015590          239 LMHGLCEKGNVEEAFGLLERMESE--GIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDK  316 (404)
Q Consensus       239 li~~~~~~~~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  316 (404)
                      ........|++++|...|.+....  |......          ..+.+  +...-..+...    ....+..+...+...
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~~----------~~~~w--~~~~r~~l~~~----~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDDL----------RDFQF--VEPFATALVED----KVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGG----------TTSTT--HHHHHHHHHHH----HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccccC----------cchHH--HHHHHHHHHHH----HHHHHHHHHHHHHHC
Confidence            335677888999998888887764  2110000          00111  11111111111    235677888899999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHH-----CCCCCCHHh
Q 015590          317 KRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQ-----QGFVPRMGM  375 (404)
Q Consensus       317 g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~  375 (404)
                      |++++|+..++.+.+.. +-+...|..++.+|...|+.++|.+.|+++.+     .|+.|...+
T Consensus        81 g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          81 GRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             CCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            99999999999998863 55888999999999999999999999998743     499998765

>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=97.82  E-value=0.00021  Score=54.11  Aligned_cols=60  Identities=10%  Similarity=0.014  Sum_probs=27.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          201 LNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       201 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      +..+..+|.+.|++++|+..++...+.. +.+..+|..+..+|...|++++|+..|++..+
T Consensus        80 ~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1          80 VLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            3334444444444444444444444433 33444444444444444444444444444444

>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=97.74  E-value=0.00011  Score=60.14  Aligned_cols=124  Identities=9%  Similarity=-0.032  Sum_probs=87.1

Q ss_pred             HhcCCChhHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHhcccCCCChHHHHHHHHHHHhhcCCH
Q 015590           65 FSNLRDPISVISVLNQYSKRKDYNPNEALYTLIINKLAQAKRFDAIEDIMQRIKVEKLCRFSDGFFYNVIKIYGNMAGRI  144 (404)
Q Consensus        65 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  144 (404)
                      ..+.|++++|+..+++.++..  |.|...+..+...++..|++++|.+.++...+..   |.....+..+.......+..
T Consensus         6 aL~~G~l~eAl~~l~~al~~~--P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~---P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS--PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF---PEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC---GGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHhcccc
Confidence            456799999999999998875  6788999999999999999999999999987765   44444444444443324444


Q ss_pred             HHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcC
Q 015590          145 SKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLG  193 (404)
Q Consensus       145 ~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g  193 (404)
                      +++..-...-...+-+++...+......+...|+.++|.+.++++.+..
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            4443332222222222333445555677888899999999999987763

>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=97.74  E-value=0.00038  Score=52.53  Aligned_cols=96  Identities=10%  Similarity=-0.054  Sum_probs=46.1

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHc---CCCC-----------CHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCC
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKL---GVEI-----------DACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEP  231 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~---g~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  231 (404)
                      +......+.+.|++.+|...|+.....   ....           ...+|+.+..+|.+.|++++|...++...+.. +.
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~   96 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SA   96 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cc
Confidence            344445555556666666555554421   0000           01233334444555555555555555554443 44


Q ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          232 NVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       232 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      +..+|..+..+|...|++++|...|++..+.
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4455555555555555555555555555443

>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=97.73  E-value=0.0027  Score=47.60  Aligned_cols=82  Identities=11%  Similarity=-0.032  Sum_probs=61.8

Q ss_pred             HHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHH
Q 015590          164 KTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGL  243 (404)
Q Consensus       164 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  243 (404)
                      ..|+.+..++.+.|++++|+..++...+.. |.+..+|..+..+|...|++++|...|+...+.. |.+......+-...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            356667778888899999999998888875 6778888888889999999999999998888765 44555555544444


Q ss_pred             HHcC
Q 015590          244 CEKG  247 (404)
Q Consensus       244 ~~~~  247 (404)
                      .+.+
T Consensus       143 ~~~~  146 (168)
T d1kt1a1         143 KKAK  146 (168)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>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=97.72  E-value=0.00049  Score=50.98  Aligned_cols=118  Identities=11%  Similarity=-0.001  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHH
Q 015590          234 RTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGL  313 (404)
Q Consensus       234 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  313 (404)
                      ..+......+.+.|++++|+..|.+....-.....             ............       ....+|..+..+|
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~-------------~~~~~~~~~~~~-------~~~~~~~Nla~~~   77 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEE-------------WDDQILLDKKKN-------IEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTT-------------CCCHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhh-------------hhhHHHHHhhhh-------HHHHHHhhHHHHH
Confidence            34555666777888888888888777653111000             000000000000       0124566777778


Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 015590          314 LDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQGFVPRMG  374 (404)
Q Consensus       314 ~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  374 (404)
                      .+.|++++|++.++...+.. +.+..+|..+..++...|++++|...|++..+  +.|+..
T Consensus        78 ~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~--l~P~n~  135 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAAS--LNPNNL  135 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HSTTCH
T ss_pred             HHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH--hCCCCH
Confidence            88888888888888877753 44677888888888888888888888888774  445443

>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=0.00035  Score=52.81  Aligned_cols=81  Identities=7%  Similarity=-0.047  Sum_probs=64.8

Q ss_pred             cHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHH
Q 015590          162 SVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMH  241 (404)
Q Consensus       162 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  241 (404)
                      +...|..+..++.+.|++++|+..++.+++.. +.+..+|..+..+|.+.|++++|...|+...+.. +.+...+..+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34567778888999999999999999999876 6678889999999999999999999999988765 445555555554


Q ss_pred             HHH
Q 015590          242 GLC  244 (404)
Q Consensus       242 ~~~  244 (404)
                      ...
T Consensus       154 ~~~  156 (169)
T d1ihga1         154 VKQ  156 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=97.63  E-value=4e-05  Score=62.72  Aligned_cols=50  Identities=22%  Similarity=0.174  Sum_probs=21.3

Q ss_pred             cCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchh
Q 015590          176 AKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPK  226 (404)
Q Consensus       176 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  226 (404)
                      .|++++|+..+++.++.. |.|...+..+...|+..|++++|...|+...+
T Consensus         9 ~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           9 EGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            344444444444444432 33344444444444444444444444444433

>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=97.58  E-value=7.8e-05  Score=67.37  Aligned_cols=115  Identities=13%  Similarity=-0.011  Sum_probs=39.5

Q ss_pred             CCHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHH
Q 015590          142 GRISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVL  221 (404)
Q Consensus       142 g~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~  221 (404)
                      +.++.|+..+....+.. +++...+..+...+.+.|+.+.|...+....+..   ...++..+.+.+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            44444444444433321 1223344444444445555555544444333221   1123444455555555555555555


Q ss_pred             HHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 015590          222 DEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMES  261 (404)
Q Consensus       222 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  261 (404)
                      ++..+.. |.+..+|+.+...|...|+..+|...|.+...
T Consensus       176 ~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         176 RHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             HHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5554443 33444555555555555555555555555443

>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=97.50  E-value=0.0004  Score=50.92  Aligned_cols=30  Identities=7%  Similarity=-0.031  Sum_probs=13.6

Q ss_pred             HHHHHHHHHchhCCCCCcHHHHHHHHHHHHH
Q 015590          215 EAAFYVLDEFPKQNCEPNVRTYSTLMHGLCE  245 (404)
Q Consensus       215 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  245 (404)
                      ++|...|+...+.+ |.+..+|..+..+|..
T Consensus        58 ~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          58 QEAITKFEEALLID-PKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-chhhHHHhhHHHHHHH
Confidence            44444444444433 3344444444444443

>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=97.40  E-value=0.00047  Score=50.50  Aligned_cols=68  Identities=12%  Similarity=-0.083  Sum_probs=34.6

Q ss_pred             CChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcC
Q 015590          212 GNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEK----------GNVEEAFGLLERMESEGIDADTVTFNILISGLRKQ  281 (404)
Q Consensus       212 g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~----------~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  281 (404)
                      +.+++|...|+...+.. |.+..++..+..+|...          +.+++|+..|++..+..+. +..+|..+..+|...
T Consensus        11 ~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~-~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1          11 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcch-hhHHHhhHHHHHHHc
Confidence            34455555555554443 34444444444444432          3345677777766655333 455666666555443

>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=96.97  E-value=0.0089  Score=43.91  Aligned_cols=96  Identities=15%  Similarity=0.110  Sum_probs=50.2

Q ss_pred             HHHHH--HHHHHhcCcHhHHHHHHHHHHHcCC-CCC----------HhHHHHHHHHHHhcCChHHHHHHHHHchhC----
Q 015590          165 TFNLV--LNLLVSAKLYGEIQGIYTSAAKLGV-EID----------ACCLNILLKGLCENGNLEAAFYVLDEFPKQ----  227 (404)
Q Consensus       165 ~~~~l--l~~~~~~~~~~~a~~~~~~~~~~g~-~~~----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----  227 (404)
                      +|..+  ...+.+.|++++|++.|++.++..- .|+          ...|+.+..+|.+.|++++|...+++..+.    
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~   88 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   88 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccc
Confidence            45544  3345566777777777777665311 111          245556666666666666666665554421    


Q ss_pred             -CCCCc-----HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 015590          228 -NCEPN-----VRTYSTLMHGLCEKGNVEEAFGLLERME  260 (404)
Q Consensus       228 -~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~m~  260 (404)
                       ...++     ..+++.+..+|...|++++|+..|++..
T Consensus        89 ~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          89 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             ccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             00111     1134445555556666666666655543

>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=96.97  E-value=0.0095  Score=43.76  Aligned_cols=63  Identities=13%  Similarity=0.028  Sum_probs=40.2

Q ss_pred             hhHHHHHHHHHhcCChhHHHHHHHHHHHC-----CCCCC-----HHHHHHHHHHHHcCCChHHHHHHHHHHHH
Q 015590          304 ASYQEVLYGLLDKKRFPEAKELVGRMICE-----RMSPS-----FVSYKKLIHGLCNQKLVEDVDWVLKKMVQ  366 (404)
Q Consensus       304 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  366 (404)
                      ..|+.+..+|...|++++|.+.+++..+.     ...++     ...+..+..+|...|++++|...|++..+
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            45566666677777777777666665532     11121     12455667788888888888888887664

>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=96.74  E-value=0.0071  Score=40.17  Aligned_cols=62  Identities=13%  Similarity=0.094  Sum_probs=30.0

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcC-----CCC-CHhHHHHHHHHHHhcCChHHHHHHHHHchhC
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLG-----VEI-DACCLNILLKGLCENGNLEAAFYVLDEFPKQ  227 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g-----~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  227 (404)
                      +-.+...+.+.|++++|...|++..+..     ..+ ...+++.+..+|.+.|++++|...++++.+.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3344555555555555555555544321     001 1234455555555555555555555555444

>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=96.56  E-value=0.0076  Score=40.01  Aligned_cols=63  Identities=13%  Similarity=0.054  Sum_probs=36.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHchhCC-----CCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 015590          200 CLNILLKGLCENGNLEAAFYVLDEFPKQN-----CEP-NVRTYSTLMHGLCEKGNVEEAFGLLERMESE  262 (404)
Q Consensus       200 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~-----~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~  262 (404)
                      .+-.+...+.+.|++++|...|++..+..     ..+ ...+++.+..+|.+.|++++|+..+++..+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34456666666777777776666654321     011 1345666666666666666666666666654

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.22  E-value=0.082  Score=37.19  Aligned_cols=16  Identities=19%  Similarity=0.171  Sum_probs=7.2

Q ss_pred             cHhHHHHHHHHHHHcC
Q 015590          178 LYGEIQGIYTSAAKLG  193 (404)
Q Consensus       178 ~~~~a~~~~~~~~~~g  193 (404)
                      ++++|.++|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            3444444444444443

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=96.17  E-value=0.11  Score=36.41  Aligned_cols=16  Identities=25%  Similarity=0.268  Sum_probs=9.1

Q ss_pred             CHHHHHHHHhhcccCC
Q 015590          143 RISKAIETLFDMPSYN  158 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~  158 (404)
                      ++++|++.|++..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4556666666655544

>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=96.15  E-value=0.084  Score=36.12  Aligned_cols=62  Identities=24%  Similarity=0.201  Sum_probs=29.9

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhcCChHHHHHHHHHchhCC
Q 015590          166 FNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILLKGLCENGNLEAAFYVLDEFPKQN  228 (404)
Q Consensus       166 ~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  228 (404)
                      ++..++.+...|.-+...+++..+.+.+ ++++...-.+.++|.+.|+..++-+++.+..+.|
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            3444444555555555555555544433 4444444445555555555555555555554444

>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=95.55  E-value=0.2  Score=34.28  Aligned_cols=141  Identities=13%  Similarity=0.093  Sum_probs=94.4

Q ss_pred             HHhcCChHHHHHHHHHchhCCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCCHHHH
Q 015590          208 LCENGNLEAAFYVLDEFPKQNCEPNVRTYSTLMHGLCEKGNVEEAFGLLERMESEGIDADTVTFNILISGLRKQGKVEEG  287 (404)
Q Consensus       208 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  287 (404)
                      +.-.|.+++..++..+....   .+..-||.+|--....-+-+-...+++..-..   .|.          ..+++....
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cCc----------hhhhcHHHH
Confidence            34457777777777777653   45566676666666666666665555555332   121          234444444


Q ss_pred             HHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 015590          288 MKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMVQQ  367 (404)
Q Consensus       288 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  367 (404)
                      ...+-.+-.     +...+..-++.....|+-+.-.+++..+.+. -+|++...-.+..+|.+.|...++-+++.+..+.
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 VECGVINNT-----LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHTTC-----CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            444433321     3455667778888889988888898887664 4788888888889999999999999999998888


Q ss_pred             CCC
Q 015590          368 GFV  370 (404)
Q Consensus       368 ~~~  370 (404)
                      |++
T Consensus       150 G~K  152 (161)
T d1wy6a1         150 GEK  152 (161)
T ss_dssp             TCH
T ss_pred             hHH
Confidence            875

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=93.71  E-value=1.8  Score=37.10  Aligned_cols=115  Identities=9%  Similarity=-0.023  Sum_probs=64.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHH----HHHHHHcCCCHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHH
Q 015590          247 GNVEEAFGLLERMESEGIDADTVTFNI----LISGLRKQGKVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEA  322 (404)
Q Consensus       247 ~~~~~A~~~~~~m~~~~~~p~~~~~~~----li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  322 (404)
                      .+.+.|..++......... +...+..    +.......+..+.+...+......+  .+.....-.+......+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHH
Confidence            4667777777766544222 2222211    2222234556677777776666553  2333334444455666778888


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          323 KELVGRMICERMSPSFVSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       323 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      ...+..|... ..-...-.--+.+++...|+.++|...|....
T Consensus       305 ~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         305 NTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhcCcc-cccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            7777776432 11223333345677778888888888888775

>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=91.14  E-value=0.93  Score=30.88  Aligned_cols=46  Identities=7%  Similarity=-0.075  Sum_probs=23.3

Q ss_pred             hhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHcCCChHHHHHHHHHHH
Q 015590          319 FPEAKELVGRMICERMSPSF-VSYKKLIHGLCNQKLVEDVDWVLKKMV  365 (404)
Q Consensus       319 ~~~a~~~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~  365 (404)
                      .++++.++++..+.+ +.+. ..+--+.-+|.+.|++++|.+.++.++
T Consensus        54 ~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L  100 (124)
T d2pqrb1          54 ERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  100 (124)
T ss_dssp             HHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            345555555555432 1122 233344455556666666666666655

>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=90.74  E-value=1.3  Score=28.49  Aligned_cols=50  Identities=14%  Similarity=0.077  Sum_probs=28.6

Q ss_pred             CHHHHHHHHHHHhhCCCCCChhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          283 KVEEGMKLLERMKGKGCYPNSASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       283 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +.-+..+-+..+......|++....+-+.+|.+.+++..|.++++..+.+
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K   70 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   70 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            33445555555555555666666666666666666666666666655543

>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=90.48  E-value=1.4  Score=28.37  Aligned_cols=62  Identities=8%  Similarity=0.032  Sum_probs=44.2

Q ss_pred             CHHHHHHHHhhcccCCCCccHHHHHHHHHHHHhcCcHhHHHHHHHHHHHcCCCCCHhHHHHHH
Q 015590          143 RISKAIETLFDMPSYNCWPSVKTFNLVLNLLVSAKLYGEIQGIYTSAAKLGVEIDACCLNILL  205 (404)
Q Consensus       143 ~~~~A~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  205 (404)
                      +.=+..+-++.+...++.|++....+.+++|.+.+++..|.++++-.+... .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            555666777777777777888888888888888888888888888776543 23344555554

>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=85.93  E-value=3.6  Score=27.80  Aligned_cols=65  Identities=15%  Similarity=0.122  Sum_probs=34.5

Q ss_pred             CHHHHHHHHHHHHcC---CCHHHHHHHHHHHhhCCCCCC-hhhHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 015590          267 DTVTFNILISGLRKQ---GKVEEGMKLLERMKGKGCYPN-SASYQEVLYGLLDKKRFPEAKELVGRMICE  332 (404)
Q Consensus       267 ~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  332 (404)
                      +..|--...-++.+.   .+.+++..++++..+.+ +.+ ...+-.|.-+|.+.|++++|.+.++.+.+.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            333333334444433   33456666666666542 112 234455555666777777777777776653