Citrus Sinensis ID: 023133

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------
Protein Sequence
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR
Secondary Structure (PSIPRED)
ccHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccHHHHcc
Coil and Loop (DISEMBL)
MCNGYIEKLCKAGNVSAAVRLLQSLRdkniflpnaynCVLVasaetndidLSFQILKDLLVSsrtlssdcyTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHikglkckpdliTYNIVLDILGRVGRVNDMLNEFAsmkeagvvpdfISYNTLLNNLRKIRRLDLCLIYFREmgesgikpdlLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNsslsdlagpkdfkrkar
Flexible Loop (DISEMBL)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIkglkckpdlITYNIVLDILGRVGRVNDMLNEFASmkeagvvpDFISYNTLLNNLRKIRRLDLCLIYFREMgesgikpdlLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEmnsslsdlagpkdfkrkar
Low Complexity Region (SEG)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR
Disordered region (IsUnstruct)
***GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFE********************
Disordered Region (DISOPRED)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRK**
Disordered Region (DISEMBL)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR
Disordered Region (DISPRO)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	287	2.2.26 [Sep-21-2011]
Q5BIV3	367	Pentatricopeptide repeat-	yes	no	0.982	0.768	0.533	1e-81
Q9SZ52	1112	Pentatricopeptide repeat-	no	no	0.916	0.236	0.281	3e-27
Q9M907	871	Pentatricopeptide repeat-	no	no	0.916	0.301	0.261	3e-26
P0C894	761	Putative pentatricopeptid	no	no	0.763	0.287	0.292	9e-26
Q9ZU27	650	Pentatricopeptide repeat-	no	no	0.452	0.2	0.349	5e-25
Q9SIC9	918	Pentatricopeptide repeat-	no	no	0.571	0.178	0.331	2e-24
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.909	0.414	0.25	1e-23
O80958	867	Pentatricopeptide repeat-	no	no	0.933	0.309	0.272	2e-23
Q9FJE6	907	Putative pentatricopeptid	no	no	0.930	0.294	0.25	2e-23
Q9CAN0	630	Pentatricopeptide repeat-	no	no	0.916	0.417	0.240	3e-22

>sp|Q5BIV3|PPR35_ARATH Pentatricopeptide repeat-containing protein At1g11900 OS=Arabidopsis thaliana GN=At1g11900 PE=2 SV=1

 Score =  303 bits (775), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 153/287 (53%), Positives = 212/287 (73%), Gaps = 5/287 (1%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLV--S 62
           +EK  + GN+S A  LLQSL++KNI LP + +  +L A+ E ND+ LS ++ +++L+   
Sbjct: 77  VEKFTRDGNLSGAYDLLQSLQEKNICLPISVFKNLLAAAGELNDMKLSCRVFREVLILPG 136

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
              LSSDCY N ARAFI TDDCT L   ++E+ + + P  +IV+NRIIFAFA++RQI+K 
Sbjct: 137 KEPLSSDCYLNLARAFINTDDCTYLTSLLKEISESSLPYRLIVMNRIIFAFAETRQIDKV 196

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE-AGVVPDFISYNTLLN 181
           L+I   +K  +CKPD+ITYN VLDILGR G VN++L   ++MKE   V  + I+YNT+LN
Sbjct: 197 LMILKEMKEWECKPDVITYNSVLDILGRAGLVNEILGVLSTMKEDCSVSVNIITYNTVLN 256

Query: 182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
            +RK  R D+CL+ + EM + GI+PDLL+YTA+IDS GR+GN++ESLRLF++MKQ+QIRP
Sbjct: 257 GMRKACRFDMCLVIYNEMVQCGIEPDLLSYTAVIDSLGRSGNVKESLRLFDEMKQRQIRP 316

Query: 242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLSDLAGPKDFKRKAR 287
           S+YVYR+LID LKK G    A+ + +E+ N+S  DLAGP+DFKR  R
Sbjct: 317 SVYVYRALIDCLKKSGDFQSALQLSDELKNTSSLDLAGPQDFKRHLR 363

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ52|PP344_ARATH Pentatricopeptide repeat-containing protein At4g31850, chloroplastic OS=Arabidopsis thaliana GN=PGR3 PE=1 SV=1

 Score =  122 bits (306), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 75/266 (28%), Positives = 133/266 (50%), Gaps = 3/266 (1%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFLPN--AYNCVLVASAETNDIDLSFQILKDLLVSS 63
           ++ LCKAGN   A   L  +RD+ I LPN   YN ++      + +D + ++  ++    
Sbjct: 370 VDALCKAGNFGEAFDTLDVMRDQGI-LPNLHTYNTLICGLLRVHRLDDALELFGNMESLG 428

Query: 64  RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL 123
              ++  Y  F   +  + D    L   E++       +I+  N  +++ AK+ +  +A 
Sbjct: 429 VKPTAYTYIVFIDYYGKSGDSVSALETFEKMKTKGIAPNIVACNASLYSLAKAGRDREAK 488

Query: 124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL 183
            IF  +K +   PD +TYN+++    +VG +++ +   + M E G  PD I  N+L+N L
Sbjct: 489 QIFYGLKDIGLVPDSVTYNMMMKCYSKVGEIDEAIKLLSEMMENGCEPDVIVVNSLINTL 548

Query: 184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI 243
            K  R+D     F  M E  +KP ++TY  L+   G+ G I+E++ LF  M Q+   P+ 
Sbjct: 549 YKADRVDEAWKMFMRMKEMKLKPTVVTYNTLLAGLGKNGKIQEAIELFEGMVQKGCPPNT 608

Query: 244 YVYRSLIDNLKKMGKVDLAMTIFEEM 269
             + +L D L K  +V LA+ +  +M
Sbjct: 609 ITFNTLFDCLCKNDEVTLALKMLFKM 634

Plays a role in the stabilization of the primary polycistronic transcript of the petL operon encoding subunits of the cytochrome b6-f complex.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M907|PP217_ARATH Pentatricopeptide repeat-containing protein At3g06920 OS=Arabidopsis thaliana GN=At3g06920 PE=2 SV=1

 Score =  119 bits (298), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 69/264 (26%), Positives = 130/264 (49%), Gaps = 1/264 (0%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDLLVSSR 64
           I  L KAG  +    L  S++++   L   AYN V+    +   ++ ++Q+L+++     
Sbjct: 559 IHGLIKAGFANETYELFYSMKEQGCVLDTRAYNIVIDGFCKCGKVNKAYQLLEEMKTKGF 618

Query: 65  TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL 124
             +   Y +        D   +  +  EE        ++++ + +I  F K  +I++A L
Sbjct: 619 EPTVVTYGSVIDGLAKIDRLDEAYMLFEEAKSKRIELNVVIYSSLIDGFGKVGRIDEAYL 678

Query: 125 IFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR 184
           I + +      P+L T+N +LD L +   +N+ L  F SMKE    P+ ++Y  L+N L 
Sbjct: 679 ILEELMQKGLTPNLYTWNSLLDALVKAEEINEALVCFQSMKELKCTPNQVTYGILINGLC 738

Query: 185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY 244
           K+R+ +   ++++EM + G+KP  ++YT +I    + GNI E+  LF+  K     P   
Sbjct: 739 KVRKFNKAFVFWQEMQKQGMKPSTISYTTMISGLAKAGNIAEAGALFDRFKANGGVPDSA 798

Query: 245 VYRSLIDNLKKMGKVDLAMTIFEE 268
            Y ++I+ L    +   A ++FEE
Sbjct: 799 CYNAMIEGLSNGNRAMDAFSLFEE 822

Arabidopsis thaliana (taxid: 3702)

>sp|P0C894|PP143_ARATH Putative pentatricopeptide repeat-containing protein At2g02150 OS=Arabidopsis thaliana GN=At2g02150 PE=3 SV=1

 Score =  117 bits (293), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 69/236 (29%), Positives = 124/236 (52%), Gaps = 17/236 (7%)

Query: 49  IDLSFQILKDLLVSSRTLSSDCYTNFAR--AFIMTDDCTQLLI-------------FIEE 93
            D  F +L DL +    +   C++   R   F  T  C  LL              F ++
Sbjct: 195 FDALFSVLIDLGMLEEAIQ--CFSKMKRFRVFPKTRSCNGLLHRFAKLGKTDDVKRFFKD 252

Query: 94  VVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR 153
           ++   +  ++   N +I    K   +E A  +F+ +K     PD +TYN ++D  G+VGR
Sbjct: 253 MIGAGARPTVFTYNIMIDCMCKEGDVEAARGLFEEMKFRGLVPDTVTYNSMIDGFGKVGR 312

Query: 154 VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTA 213
           ++D +  F  MK+    PD I+YN L+N   K  +L + L ++REM  +G+KP++++Y+ 
Sbjct: 313 LDDTVCFFEEMKDMCCEPDVITYNALINCFCKFGKLPIGLEFYREMKGNGLKPNVVSYST 372

Query: 214 LIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           L+D+F + G ++++++ + DM++  + P+ Y Y SLID   K+G +  A  +  EM
Sbjct: 373 LVDAFCKEGMMQQAIKFYVDMRRVGLVPNEYTYTSLIDANCKIGNLSDAFRLGNEM 428

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZU27|PPR76_ARATH Pentatricopeptide repeat-containing protein At1g51965, mitochondrial OS=Arabidopsis thaliana GN=At1g51965 PE=2 SV=1

 Score =  115 bits (287), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 99/166 (59%)

Query: 104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS 163
           ++ N +  A  K +QI     +F+ +K     PD+ TYNI++   GRVG V++ +N F  
Sbjct: 443 MMYNTVFSALGKLKQISHIHDLFEKMKKDGPSPDIFTYNILIASFGRVGEVDEAINIFEE 502

Query: 164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN 223
           ++ +   PD ISYN+L+N L K   +D   + F+EM E G+ PD++TY+ L++ FG+T  
Sbjct: 503 LERSDCKPDIISYNSLINCLGKNGDVDEAHVRFKEMQEKGLNPDVVTYSTLMECFGKTER 562

Query: 224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           +E +  LF +M  +  +P+I  Y  L+D L+K G+   A+ ++ +M
Sbjct: 563 VEMAYSLFEEMLVKGCQPNIVTYNILLDCLEKNGRTAEAVDLYSKM 608

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIC9|PP178_ARATH Pentatricopeptide repeat-containing protein At2g31400, chloroplastic OS=Arabidopsis thaliana GN=At2g31400 PE=2 SV=1

 Score =  113 bits (283), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 57/172 (33%), Positives = 96/172 (55%)

Query: 101 ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE 160
           + +   N ++ A  K  Q++ A  I   +   +  P++++Y+ V+D   + GR ++ LN 
Sbjct: 372 QDVFSYNTLLDAICKGGQMDLAFEILAQMPVKRIMPNVVSYSTVIDGFAKAGRFDEALNL 431

Query: 161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR 220
           F  M+  G+  D +SYNTLL+   K+ R +  L   REM   GIK D++TY AL+  +G+
Sbjct: 432 FGEMRYLGIALDRVSYNTLLSIYTKVGRSEEALDILREMASVGIKKDVVTYNALLGGYGK 491

Query: 221 TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS 272
            G  +E  ++F +MK++ + P++  Y +LID   K G    AM IF E  S+
Sbjct: 492 QGKYDEVKKVFTEMKREHVLPNLLTYSTLIDGYSKGGLYKEAMEIFREFKSA 543

Arabidopsis thaliana (taxid: 3702)

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

 Score =  110 bits (275), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 67/268 (25%), Positives = 138/268 (51%), Gaps = 7/268 (2%)

Query: 3   NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPN--AYNCVLVASAETNDIDLSFQILKDLL 60
           N  I+ LCK  ++  A+ L + +  K I  PN   Y+ ++           + ++L D++
Sbjct: 260 NTIIDGLCKYKHMDDALNLFKEMETKGI-RPNVVTYSSLISCLCNYGRWSDASRLLSDMI 318

Query: 61  VSSRTLSSDCYTNFA--RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ 118
              R ++ D +T  A   AF+      +     +E+V+ +   SI+  + +I  F    +
Sbjct: 319 --ERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDR 376

Query: 119 IEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT 178
           +++A  +F+ +    C PD++TYN ++    +  RV + +  F  M + G+V + ++YN 
Sbjct: 377 LDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNI 436

Query: 179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ 238
           L+  L +    D+    F+EM   G+ P+++TY  L+D   + G +E+++ +F  +++ +
Sbjct: 437 LIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSK 496

Query: 239 IRPSIYVYRSLIDNLKKMGKVDLAMTIF 266
           + P+IY Y  +I+ + K GKV+    +F
Sbjct: 497 MEPTIYTYNIMIEGMCKAGKVEDGWDLF 524

Arabidopsis thaliana (taxid: 3702)

>sp|O80958|PP194_ARATH Pentatricopeptide repeat-containing protein At2g39230, mitochondrial OS=Arabidopsis thaliana GN=LOJ PE=1 SV=1

 Score =  110 bits (274), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 74/272 (27%), Positives = 130/272 (47%), Gaps = 4/272 (1%)

Query: 1   MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNA--YNCVLVASAETNDIDLSFQILKD 58
           MCN      CK G V AA   L+ +  K I  PN   YN +++A     ++DL+  I  +
Sbjct: 451 MCNKIFLLFCKQGKVDAATSFLKMMEQKGI-EPNVVFYNNMMLAHCRMKNMDLARSIFSE 509

Query: 59  LLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ 118
           +L      ++  Y+     F    D       I ++       + ++ N II    K  Q
Sbjct: 510 MLEKGLEPNNFTYSILIDGFFKNKDEQNAWDVINQMNASNFEANEVIYNTIINGLCKVGQ 569

Query: 119 IEKALLIFDH-IKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYN 177
             KA  +  + IK  +      +YN ++D   +VG  +  +  +  M E G  P+ +++ 
Sbjct: 570 TSKAKEMLQNLIKEKRYSMSCTSYNSIIDGFVKVGDTDSAVETYREMSENGKSPNVVTFT 629

Query: 178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ 237
           +L+N   K  R+DL L    EM    +K DL  Y ALID F +  +++ +  LF+++ + 
Sbjct: 630 SLINGFCKSNRMDLALEMTHEMKSMELKLDLPAYGALIDGFCKKNDMKTAYTLFSELPEL 689

Query: 238 QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
            + P++ VY SLI   + +GK+D A+ ++++M
Sbjct: 690 GLMPNVSVYNSLISGFRNLGKMDAAIDLYKKM 721

Involved in lateral organ development and boundary demarcation.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  109 bits (273), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 67/268 (25%), Positives = 133/268 (49%), Gaps = 1/268 (0%)

Query: 3   NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVAS-AETNDIDLSFQILKDLLV 61
           N  I+ LCK   V  AV + + L  K++       C LV    +  + ++  +++ ++L 
Sbjct: 266 NVLIDGLCKKQKVWEAVGIKKDLAGKDLKPDVVTYCTLVYGLCKVQEFEIGLEMMDEMLC 325

Query: 62  SSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK 121
              + S    ++            + L  ++ VV      ++ V N +I +  K R+  +
Sbjct: 326 LRFSPSEAAVSSLVEGLRKRGKIEEALNLVKRVVDFGVSPNLFVYNALIDSLCKGRKFHE 385

Query: 122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLN 181
           A L+FD +  +  +P+ +TY+I++D+  R G+++  L+    M + G+      YN+L+N
Sbjct: 386 AELLFDRMGKIGLRPNDVTYSILIDMFCRRGKLDTALSFLGEMVDTGLKLSVYPYNSLIN 445

Query: 182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
              K   +     +  EM    ++P ++TYT+L+  +   G I ++LRL+++M  + I P
Sbjct: 446 GHCKFGDISAAEGFMAEMINKKLEPTVVTYTSLMGGYCSKGKINKALRLYHEMTGKGIAP 505

Query: 242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           SIY + +L+  L + G +  A+ +F EM
Sbjct: 506 SIYTFTTLLSGLFRAGLIRDAVKLFNEM 533

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAN0|PPR99_ARATH Pentatricopeptide repeat-containing protein At1g63130, mitochondrial OS=Arabidopsis thaliana GN=At1g63130 PE=2 SV=1

 Score =  105 bits (263), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 64/266 (24%), Positives = 132/266 (49%), Gaps = 3/266 (1%)

Query: 3   NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPN--AYNCVLVASAETNDIDLSFQILKDLL 60
           N  I+ LC   NV+ A+ L   + +K I  PN   YN ++           + ++L D++
Sbjct: 260 NTIIDALCNYKNVNDALNLFTEMDNKGI-RPNVVTYNSLIRCLCNYGRWSDASRLLSDMI 318

Query: 61  VSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE 120
                 +   ++    AF+      +     +E+++ +    I   + +I  F    +++
Sbjct: 319 ERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSLINGFCMHDRLD 378

Query: 121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLL 180
           +A  +F+ +    C P+++TYN ++    +  RV++ +  F  M + G+V + ++Y TL+
Sbjct: 379 EAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVDEGMELFREMSQRGLVGNTVTYTTLI 438

Query: 181 NNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR 240
           +   + R  D   I F++M   G+ PD++TY+ L+D     G +E +L +F  +++ ++ 
Sbjct: 439 HGFFQARECDNAQIVFKQMVSDGVLPDIMTYSILLDGLCNNGKVETALVVFEYLQRSKME 498

Query: 241 PSIYVYRSLIDNLKKMGKVDLAMTIF 266
           P IY Y  +I+ + K GKV+    +F
Sbjct: 499 PDIYTYNIMIEGMCKAGKVEDGWDLF 524

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	287
255585157	405	pentatricopeptide repeat-containing prot	1.0	0.708	0.642	1e-104
224059682	352	predicted protein [Populus trichocarpa]	0.979	0.798	0.659	1e-104
224103987	382	predicted protein [Populus trichocarpa]	0.989	0.743	0.631	1e-103
302143548	386	unnamed protein product [Vitis vinifera]	0.996	0.740	0.635	1e-101
225446837	357	PREDICTED: pentatricopeptide repeat-cont	0.996	0.801	0.635	1e-101
356549954	366	PREDICTED: pentatricopeptide repeat-cont	0.989	0.775	0.543	2e-81
42561931	367	pentatricopeptide repeat-containing prot	0.982	0.768	0.533	7e-80
3157946	364	Similar to salt-inducible membrane prote	0.982	0.774	0.533	8e-80
297849558	367	pentatricopeptide repeat-containing prot	0.982	0.768	0.540	1e-79
357445513	361	Pentatricopeptide repeat-containing prot	0.993	0.789	0.559	6e-77

>gi|255585157|ref|XP_002533283.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223526886|gb|EEF29094.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  385 bits (989), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 185/288 (64%), Positives = 235/288 (81%), Gaps = 1/288 (0%)

Query: 1   MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDL 59
           +C GY+ KLC +G++  AVRLLQSL+++NI L PNAYN V+ A+ E N  D+  ++ KDL
Sbjct: 118 ICTGYLHKLCNSGSLFVAVRLLQSLQNRNITLGPNAYNLVMEAAGEANKADIVSRVFKDL 177

Query: 60  LVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI 119
           ++S ++L S  + N AR FI T+D   L+ F++EV+++A P S++V+NRIIFAFA+ RQ 
Sbjct: 178 MMSCKSLPSSSFINLARGFINTNDHVLLMKFVKEVLELAFPRSMVVINRIIFAFAECRQF 237

Query: 120 EKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTL 179
           +KALLIFD IK L+ KPDLITYN+VL ILGR GRV++ML EF+SMKEAG+VPDFI YNTL
Sbjct: 238 DKALLIFDQIKDLEYKPDLITYNMVLHILGRAGRVDEMLYEFSSMKEAGIVPDFICYNTL 297

Query: 180 LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI 239
           LN L+K  RLDLCL+Y REMGESGI+ DLLTYTALI SFG++G+IEESLRLF+DMK +QI
Sbjct: 298 LNQLQKAGRLDLCLVYIREMGESGIEADLLTYTALIQSFGKSGHIEESLRLFDDMKTRQI 357

Query: 240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
           RPSIY+YRSLI+  KKMGKV+LAMT+ EEMN+S  +LAGP DFKRK R
Sbjct: 358 RPSIYIYRSLINTAKKMGKVELAMTLLEEMNASPPNLAGPNDFKRKRR 405

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224059682|ref|XP_002299968.1| predicted protein [Populus trichocarpa] gi|222847226|gb|EEE84773.1| predicted protein [Populus trichocarpa]

 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 186/282 (65%), Positives = 231/282 (81%), Gaps = 1/282 (0%)

Query: 4   GYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDLLVS 62
            Y+  LCKAGN+  AVRLLQSL DKNIFL P+AYN +LVA++E NDI +  Q+ KDL+VS
Sbjct: 68  AYVHNLCKAGNLFTAVRLLQSLCDKNIFLGPSAYNIILVAASEKNDIAILSQVFKDLIVS 127

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
            ++L S  Y   AR F+ T+D  QLL  ++EV ++  P S++VVNRIIFAFA+  Q +KA
Sbjct: 128 CQSLPSTSYLKLARGFVKTNDDVQLLRLVKEVSEMTFPSSMMVVNRIIFAFAECGQFDKA 187

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN 182
           LLIF  ++ LKCKPDL+TYN VLD+LG  GR+++ML EFASMKEAG++PDFISYNTLLN 
Sbjct: 188 LLIFKQMENLKCKPDLVTYNTVLDLLGHAGRIDEMLCEFASMKEAGILPDFISYNTLLNQ 247

Query: 183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS 242
           L K+ RLDLC +Y R+M ESGI+PDLLTYTALI SFG++GNIEESLRLFN+MK +QIRPS
Sbjct: 248 LWKVGRLDLCSVYSRDMVESGIEPDLLTYTALIGSFGQSGNIEESLRLFNEMKTKQIRPS 307

Query: 243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKR 284
           IY+YRSLI +LKKMGKV+LAMT+ EEMN+S+S+LAG KDFKR
Sbjct: 308 IYIYRSLIASLKKMGKVELAMTLLEEMNASMSNLAGHKDFKR 349

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103987|ref|XP_002313272.1| predicted protein [Populus trichocarpa] gi|222849680|gb|EEE87227.1| predicted protein [Populus trichocarpa]

 Score =  379 bits (972), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 180/285 (63%), Positives = 231/285 (81%), Gaps = 1/285 (0%)

Query: 4   GYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDLLVS 62
            Y+  LCKAG + AAVRLL+ LRDKNIFL P+AYN +LV ++E ND+++  Q+ KDL++S
Sbjct: 98  AYVHNLCKAGTLFAAVRLLRLLRDKNIFLGPSAYNIILVTASEKNDVEILSQVFKDLILS 157

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
            ++L S  Y   AR F+ ++D  QLL  ++EV ++  P S  VVNR IFAFA+  Q +KA
Sbjct: 158 FQSLPSSLYLKLARGFVKSNDDVQLLRLVKEVSELTFPSSTKVVNRFIFAFAECGQFDKA 217

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN 182
           +LIF+ ++ LKCKPDL+TYN VLD+LGR GR+++ML EFASMKEAG++PDFISYNTLLN 
Sbjct: 218 ILIFEQMENLKCKPDLVTYNTVLDLLGRAGRIDEMLGEFASMKEAGILPDFISYNTLLNQ 277

Query: 183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS 242
           L K+ RLDLC +YFR+M  +GI+PDLLTYTALI SFG++GNIEESLRLFN+MK +QIRPS
Sbjct: 278 LTKVGRLDLCSVYFRDMVGNGIEPDLLTYTALIWSFGQSGNIEESLRLFNEMKTKQIRPS 337

Query: 243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
           IY+YRSLI +LKKMGK++LAMT  EEMN+S+S+LAGPKDFKR  R
Sbjct: 338 IYIYRSLIASLKKMGKIELAMTFLEEMNASMSNLAGPKDFKRTHR 382

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|302143548|emb|CBI22109.3| unnamed protein product [Vitis vinifera]

 Score =  375 bits (962), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 183/288 (63%), Positives = 230/288 (79%), Gaps = 2/288 (0%)

Query: 1   MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDL 59
           +C  YI+KL KAGN SAA R +QSL DK+IFL PNAYN +LVA++E N ID   QI KDL
Sbjct: 100 LCTTYIDKLLKAGNPSAAARFMQSLHDKHIFLSPNAYNLLLVAASEANAIDFLSQIFKDL 159

Query: 60  LVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI 119
           LVS++ LSS  Y N A+ F  TDD   LL F+ EV ++  P +  ++NRII AFA+ RQI
Sbjct: 160 LVSNKPLSSTSYFNVAKVFTKTDDSV-LLKFVREVSELTFPRNATILNRIIHAFAECRQI 218

Query: 120 EKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTL 179
           EK+L+IFDH+K LKCKPDLITYN VL  LGR GR+++ML+EF+SMK A + PD ISYNTL
Sbjct: 219 EKSLIIFDHMKSLKCKPDLITYNTVLGFLGRAGRLDEMLHEFSSMKVANIAPDIISYNTL 278

Query: 180 LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI 239
           LN+L+K+ RLDLCL++FREMGE+G+KPDL TY ALI+ FG++GN+EE+LRLF++MKQ QI
Sbjct: 279 LNSLQKVGRLDLCLVFFREMGENGLKPDLRTYRALIEGFGQSGNLEEALRLFSEMKQGQI 338

Query: 240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
            PSIY+YRSLI+  KKMGKV+LAM++ EEMN+ L DL GPKDFK+K R
Sbjct: 339 CPSIYIYRSLINYSKKMGKVELAMSLSEEMNACLPDLIGPKDFKQKNR 386

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446837|ref|XP_002279448.1| PREDICTED: pentatricopeptide repeat-containing protein At1g11900-like [Vitis vinifera]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 183/288 (63%), Positives = 230/288 (79%), Gaps = 2/288 (0%)

Query: 1   MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDL 59
           +C  YI+KL KAGN SAA R +QSL DK+IFL PNAYN +LVA++E N ID   QI KDL
Sbjct: 71  LCTTYIDKLLKAGNPSAAARFMQSLHDKHIFLSPNAYNLLLVAASEANAIDFLSQIFKDL 130

Query: 60  LVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI 119
           LVS++ LSS  Y N A+ F  TDD   LL F+ EV ++  P +  ++NRII AFA+ RQI
Sbjct: 131 LVSNKPLSSTSYFNVAKVFTKTDDSV-LLKFVREVSELTFPRNATILNRIIHAFAECRQI 189

Query: 120 EKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTL 179
           EK+L+IFDH+K LKCKPDLITYN VL  LGR GR+++ML+EF+SMK A + PD ISYNTL
Sbjct: 190 EKSLIIFDHMKSLKCKPDLITYNTVLGFLGRAGRLDEMLHEFSSMKVANIAPDIISYNTL 249

Query: 180 LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI 239
           LN+L+K+ RLDLCL++FREMGE+G+KPDL TY ALI+ FG++GN+EE+LRLF++MKQ QI
Sbjct: 250 LNSLQKVGRLDLCLVFFREMGENGLKPDLRTYRALIEGFGQSGNLEEALRLFSEMKQGQI 309

Query: 240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
            PSIY+YRSLI+  KKMGKV+LAM++ EEMN+ L DL GPKDFK+K R
Sbjct: 310 CPSIYIYRSLINYSKKMGKVELAMSLSEEMNACLPDLIGPKDFKQKNR 357

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549954|ref|XP_003543355.1| PREDICTED: pentatricopeptide repeat-containing protein At1g11900-like [Glycine max]

 Score =  308 bits (790), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 155/285 (54%), Positives = 213/285 (74%), Gaps = 1/285 (0%)

Query: 4   GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVS 62
           GYI+K+CKAGN+S A ++L+ L DKNI +  + YN +LV +++ NDIDLS Q+ + LL+S
Sbjct: 75  GYIDKICKAGNLSVASKMLEILNDKNIVVTLDVYNLILVEASQKNDIDLSCQVFRKLLLS 134

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
             + S+     FA+AF   +DC +LL F+EE+ +I    +   +N+IIFAFAK  Q +K+
Sbjct: 135 CESPSATSCLKFAQAFSKVNDCVELLRFLEEISEITCSSTSSFINKIIFAFAKCGQRDKS 194

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN 182
           L+IFDH+K      DL+TYNIVLDILGR GRV++ML+ FAS+K+ G VPD +SYNTL+N 
Sbjct: 195 LVIFDHLKRQGYGLDLVTYNIVLDILGRTGRVDEMLDVFASIKDTGFVPDTVSYNTLING 254

Query: 183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS 242
           LRK  R D+C +YF+EM E G++PDLLTYTA+I+ FGR+GN+EESL+ F +MK + + PS
Sbjct: 255 LRKAGRFDMCFVYFKEMTEKGVEPDLLTYTAIIEIFGRSGNVEESLKCFREMKLKGVLPS 314

Query: 243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
           IY+YRSLI NL K GKV+LA  + EE+NSS + LAGP DFK+K +
Sbjct: 315 IYIYRSLIHNLNKTGKVELATELLEELNSSSTCLAGPADFKQKRK 359

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42561931|ref|NP_172654.2| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75104249|sp|Q5BIV3.1|PPR35_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At1g11900 gi|60543317|gb|AAX22256.1| At1g11900 [Arabidopsis thaliana] gi|332190689|gb|AEE28810.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  303 bits (775), Expect = 7e-80,   Method: Compositional matrix adjust.
 Identities = 153/287 (53%), Positives = 212/287 (73%), Gaps = 5/287 (1%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLV--S 62
           +EK  + GN+S A  LLQSL++KNI LP + +  +L A+ E ND+ LS ++ +++L+   
Sbjct: 77  VEKFTRDGNLSGAYDLLQSLQEKNICLPISVFKNLLAAAGELNDMKLSCRVFREVLILPG 136

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
              LSSDCY N ARAFI TDDCT L   ++E+ + + P  +IV+NRIIFAFA++RQI+K 
Sbjct: 137 KEPLSSDCYLNLARAFINTDDCTYLTSLLKEISESSLPYRLIVMNRIIFAFAETRQIDKV 196

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE-AGVVPDFISYNTLLN 181
           L+I   +K  +CKPD+ITYN VLDILGR G VN++L   ++MKE   V  + I+YNT+LN
Sbjct: 197 LMILKEMKEWECKPDVITYNSVLDILGRAGLVNEILGVLSTMKEDCSVSVNIITYNTVLN 256

Query: 182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
            +RK  R D+CL+ + EM + GI+PDLL+YTA+IDS GR+GN++ESLRLF++MKQ+QIRP
Sbjct: 257 GMRKACRFDMCLVIYNEMVQCGIEPDLLSYTAVIDSLGRSGNVKESLRLFDEMKQRQIRP 316

Query: 242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLSDLAGPKDFKRKAR 287
           S+YVYR+LID LKK G    A+ + +E+ N+S  DLAGP+DFKR  R
Sbjct: 317 SVYVYRALIDCLKKSGDFQSALQLSDELKNTSSLDLAGPQDFKRHLR 363

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3157946|gb|AAC17629.1| Similar to salt-inducible membrane protein gb|U08285 from Nicotiana tabacum. EST gb|F14010 comes from this gene [Arabidopsis thaliana]

 Score =  303 bits (775), Expect = 8e-80,   Method: Compositional matrix adjust.
 Identities = 153/287 (53%), Positives = 212/287 (73%), Gaps = 5/287 (1%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLV--S 62
           +EK  + GN+S A  LLQSL++KNI LP + +  +L A+ E ND+ LS ++ +++L+   
Sbjct: 74  VEKFTRDGNLSGAYDLLQSLQEKNICLPISVFKNLLAAAGELNDMKLSCRVFREVLILPG 133

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
              LSSDCY N ARAFI TDDCT L   ++E+ + + P  +IV+NRIIFAFA++RQI+K 
Sbjct: 134 KEPLSSDCYLNLARAFINTDDCTYLTSLLKEISESSLPYRLIVMNRIIFAFAETRQIDKV 193

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE-AGVVPDFISYNTLLN 181
           L+I   +K  +CKPD+ITYN VLDILGR G VN++L   ++MKE   V  + I+YNT+LN
Sbjct: 194 LMILKEMKEWECKPDVITYNSVLDILGRAGLVNEILGVLSTMKEDCSVSVNIITYNTVLN 253

Query: 182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
            +RK  R D+CL+ + EM + GI+PDLL+YTA+IDS GR+GN++ESLRLF++MKQ+QIRP
Sbjct: 254 GMRKACRFDMCLVIYNEMVQCGIEPDLLSYTAVIDSLGRSGNVKESLRLFDEMKQRQIRP 313

Query: 242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLSDLAGPKDFKRKAR 287
           S+YVYR+LID LKK G    A+ + +E+ N+S  DLAGP+DFKR  R
Sbjct: 314 SVYVYRALIDCLKKSGDFQSALQLSDELKNTSSLDLAGPQDFKRHLR 360

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297849558|ref|XP_002892660.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297338502|gb|EFH68919.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  301 bits (772), Expect = 1e-79,   Method: Compositional matrix adjust.
 Identities = 155/287 (54%), Positives = 209/287 (72%), Gaps = 5/287 (1%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVS-- 62
           +EK  + GN+SAA  L QSL+DKNI LP + +  +L  + E ND+ LS +I ++LL+S  
Sbjct: 77  VEKYTRDGNLSAANELWQSLQDKNICLPISVFKNLLAGAGEKNDMKLSCRIFRELLISPV 136

Query: 63  SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
              LSSDCY N ARAFI T+DCT L   ++E+ + + P  +IV+NRII AFA++RQI+K 
Sbjct: 137 KEPLSSDCYLNLARAFINTNDCTHLTSLVKEISESSLPYRLIVMNRIILAFAETRQIDKV 196

Query: 123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE-AGVVPDFISYNTLLN 181
           L+I   +K  +CKPD+ITYN VLDILGR G VN+ML   ++MKE   V  + I+YNT+LN
Sbjct: 197 LMILKQMKEWECKPDVITYNSVLDILGRAGLVNEMLGVLSTMKEDCDVSVNIITYNTVLN 256

Query: 182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
            +RK  R D+CL+ + EM   GI+PDLL+YTA+IDS GR+GN +ESLRLF++MKQ+QIRP
Sbjct: 257 GMRKACRFDMCLVIYNEMVLRGIEPDLLSYTAVIDSLGRSGNTKESLRLFDEMKQRQIRP 316

Query: 242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLSDLAGPKDFKRKAR 287
           S+YVYR+LID LKK G    A+ + +E+ N+S  DLAGP+DFKR  R
Sbjct: 317 SVYVYRALIDCLKKSGDFQGALQLSDELKNTSSLDLAGPQDFKRHLR 363

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445513|ref|XP_003593034.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355482082|gb|AES63285.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  293 bits (750), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 161/288 (55%), Positives = 207/288 (71%), Gaps = 3/288 (1%)

Query: 3   NGYIEKLCKAGNVSAAVRLLQSLRDKNIFL-PNAYNCVLVASAETNDIDLSFQILKDLLV 61
           + YI+K+CKAGN+SA  ++LQ L DKNI + PN YN +LV +++ NDI LS Q+LK LL+
Sbjct: 70  SAYIDKMCKAGNLSALSQMLQILNDKNIVVSPNMYNLILVEASQKNDIVLSCQMLKKLLL 129

Query: 62  SSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIV-VNRIIFAFAKSRQIE 120
           S  + S+     FA+AF   +  T+L+IF++E+V   S  SI   +N+IIFAFAKS Q +
Sbjct: 130 SGESPSATSCVKFAQAFREVNQFTELIIFLKEIVSETSCSSISSFINKIIFAFAKSGQKD 189

Query: 121 KALLIFDHIKGLKCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTL 179
            AL IF+H++       DLITYNIVLDILGR GRV++ML+ FAS+KE G VPD ISYNTL
Sbjct: 190 SALAIFEHLREQNNSCLDLITYNIVLDILGRKGRVDEMLDMFASLKETGFVPDTISYNTL 249

Query: 180 LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI 239
           +N LRK+ R D+C  YF+EM E+G +PDLLTYTALID  GR GNIEESL+ F +MK + I
Sbjct: 250 INGLRKVGRSDMCFEYFKEMKENGNEPDLLTYTALIDISGRAGNIEESLKFFMEMKLKGI 309

Query: 240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRKAR 287
            PSI +YRSLI NL K   ++LA  + EEMNSS + LA P DFK K R
Sbjct: 310 LPSIQIYRSLIHNLNKTENIELATELLEEMNSSSTCLAVPGDFKTKRR 357

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	287
TAIR|locus:2008955	367	AT1G11900 [Arabidopsis thalian	0.982	0.768	0.533	5e-76
TAIR|locus:2116772	1112	PGR3 "AT4G31850" [Arabidopsis	0.916	0.236	0.281	3.5e-26
TAIR|locus:2077637	871	AT3G06920 "AT3G06920" [Arabido	0.909	0.299	0.270	3.5e-25
TAIR|locus:2056078	867	LOJ "LATERAL ORGAN JUNCTION" [	0.958	0.317	0.277	4.4e-25
TAIR|locus:2203916	634	AT1G62590 [Arabidopsis thalian	0.916	0.414	0.255	9.9e-25
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.909	0.414	0.25	1.6e-24
TAIR|locus:504956171	650	ABO5 "ABA Overly-Sensitive 5"	0.578	0.255	0.349	2.2e-24
TAIR|locus:2026207	548	AT1G62680 [Arabidopsis thalian	0.940	0.492	0.241	6.2e-24
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.923	0.411	0.253	1.2e-23
TAIR|locus:2061310	918	GUN1 "AT2G31400" [Arabidopsis	0.630	0.197	0.320	1.5e-23

TAIR|locus:2008955 AT1G11900 [Arabidopsis thaliana (taxid:3702)]

 Score = 766 (274.7 bits), Expect = 5.0e-76, P = 5.0e-76
 Identities = 153/287 (53%), Positives = 212/287 (73%)

Query:     6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLV--S 62
             +EK  + GN+S A  LLQSL++KNI LP + +  +L A+ E ND+ LS ++ +++L+   
Sbjct:    77 VEKFTRDGNLSGAYDLLQSLQEKNICLPISVFKNLLAAAGELNDMKLSCRVFREVLILPG 136

Query:    63 SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA 122
                LSSDCY N ARAFI TDDCT L   ++E+ + + P  +IV+NRIIFAFA++RQI+K 
Sbjct:   137 KEPLSSDCYLNLARAFINTDDCTYLTSLLKEISESSLPYRLIVMNRIIFAFAETRQIDKV 196

Query:   123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE-AGVVPDFISYNTLLN 181
             L+I   +K  +CKPD+ITYN VLDILGR G VN++L   ++MKE   V  + I+YNT+LN
Sbjct:   197 LMILKEMKEWECKPDVITYNSVLDILGRAGLVNEILGVLSTMKEDCSVSVNIITYNTVLN 256

Query:   182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
              +RK  R D+CL+ + EM + GI+PDLL+YTA+IDS GR+GN++ESLRLF++MKQ+QIRP
Sbjct:   257 GMRKACRFDMCLVIYNEMVQCGIEPDLLSYTAVIDSLGRSGNVKESLRLFDEMKQRQIRP 316

Query:   242 SIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLSDLAGPKDFKRKAR 287
             S+YVYR+LID LKK G    A+ + +E+ N+S  DLAGP+DFKR  R
Sbjct:   317 SVYVYRALIDCLKKSGDFQSALQLSDELKNTSSLDLAGPQDFKRHLR 363

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2116772 PGR3 "AT4G31850" [Arabidopsis thaliana (taxid:3702)]

 Score = 308 (113.5 bits), Expect = 3.5e-26, P = 3.5e-26
 Identities = 75/266 (28%), Positives = 133/266 (50%)

Query:     6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPN--AYNCVLVASAETNDIDLSFQILKDLLVSS 63
             ++ LCKAGN   A   L  +RD+ I LPN   YN ++      + +D + ++  ++    
Sbjct:   370 VDALCKAGNFGEAFDTLDVMRDQGI-LPNLHTYNTLICGLLRVHRLDDALELFGNMESLG 428

Query:    64 RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL 123
                ++  Y  F   +  + D    L   E++       +I+  N  +++ AK+ +  +A 
Sbjct:   429 VKPTAYTYIVFIDYYGKSGDSVSALETFEKMKTKGIAPNIVACNASLYSLAKAGRDREAK 488

Query:   124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL 183
              IF  +K +   PD +TYN+++    +VG +++ +   + M E G  PD I  N+L+N L
Sbjct:   489 QIFYGLKDIGLVPDSVTYNMMMKCYSKVGEIDEAIKLLSEMMENGCEPDVIVVNSLINTL 548

Query:   184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI 243
              K  R+D     F  M E  +KP ++TY  L+   G+ G I+E++ LF  M Q+   P+ 
Sbjct:   549 YKADRVDEAWKMFMRMKEMKLKPTVVTYNTLLAGLGKNGKIQEAIELFEGMVQKGCPPNT 608

Query:   244 YVYRSLIDNLKKMGKVDLAMTIFEEM 269
               + +L D L K  +V LA+ +  +M
Sbjct:   609 ITFNTLFDCLCKNDEVTLALKMLFKM 634

GO:0008150 "biological_process" evidence=ND

GO:0000023 "maltose metabolic process" evidence=RCA

GO:0000272 "polysaccharide catabolic process" evidence=RCA

GO:0005982 "starch metabolic process" evidence=RCA

GO:0006098 "pentose-phosphate shunt" evidence=RCA

GO:0006655 "phosphatidylglycerol biosynthetic process" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010027 "thylakoid membrane organization" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0019252 "starch biosynthetic process" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0046777 "protein autophosphorylation" evidence=RCA

TAIR|locus:2077637 AT3G06920 "AT3G06920" [Arabidopsis thaliana (taxid:3702)]

 Score = 297 (109.6 bits), Expect = 3.5e-25, P = 3.5e-25
 Identities = 72/266 (27%), Positives = 133/266 (50%)

Query:     6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPN-AYNCVLVASAETNDIDLSFQILKDLLVSSR 64
             I  L KAG  +    L  S++++   L   AYN V+    +   ++ ++Q+L+++     
Sbjct:   559 IHGLIKAGFANETYELFYSMKEQGCVLDTRAYNIVIDGFCKCGKVNKAYQLLEEMKTKGF 618

Query:    65 TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL 124
               +   Y +        D   +  +  EE        ++++ + +I  F K  +I++A L
Sbjct:   619 EPTVVTYGSVIDGLAKIDRLDEAYMLFEEAKSKRIELNVVIYSSLIDGFGKVGRIDEAYL 678

Query:   125 IFDHI--KGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN 182
             I + +  KGL   P+L T+N +LD L +   +N+ L  F SMKE    P+ ++Y  L+N 
Sbjct:   679 ILEELMQKGLT--PNLYTWNSLLDALVKAEEINEALVCFQSMKELKCTPNQVTYGILING 736

Query:   183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS 242
             L K+R+ +   ++++EM + G+KP  ++YT +I    + GNI E+  LF+  K     P 
Sbjct:   737 LCKVRKFNKAFVFWQEMQKQGMKPSTISYTTMISGLAKAGNIAEAGALFDRFKANGGVPD 796

Query:   243 IYVYRSLIDNLKKMGKVDLAMTIFEE 268
                Y ++I+ L    +   A ++FEE
Sbjct:   797 SACYNAMIEGLSNGNRAMDAFSLFEE 822

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2056078 LOJ "LATERAL ORGAN JUNCTION" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 4.4e-25, P = 4.4e-25
 Identities = 78/281 (27%), Positives = 135/281 (48%)

Query:     1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNA--YNCVLVASAETNDIDLSFQILKD 58
             MCN      CK G V AA   L+ +  K I  PN   YN +++A     ++DL+  I  +
Sbjct:   451 MCNKIFLLFCKQGKVDAATSFLKMMEQKGIE-PNVVFYNNMMLAHCRMKNMDLARSIFSE 509

Query:    59 LLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ 118
             +L      ++  Y+     F    D       I ++       + ++ N II    K  Q
Sbjct:   510 MLEKGLEPNNFTYSILIDGFFKNKDEQNAWDVINQMNASNFEANEVIYNTIINGLCKVGQ 569

Query:   119 IEKALLIFDH-IKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYN 177
               KA  +  + IK  +      +YN ++D   +VG  +  +  +  M E G  P+ +++ 
Sbjct:   570 TSKAKEMLQNLIKEKRYSMSCTSYNSIIDGFVKVGDTDSAVETYREMSENGKSPNVVTFT 629

Query:   178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ 237
             +L+N   K  R+DL L    EM    +K DL  Y ALID F +  +++ +  LF+++ + 
Sbjct:   630 SLINGFCKSNRMDLALEMTHEMKSMELKLDLPAYGALIDGFCKKNDMKTAYTLFSELPEL 689

Query:   238 QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM-NSSLS-DL 276
              + P++ VY SLI   + +GK+D A+ ++++M N  +S DL
Sbjct:   690 GLMPNVSVYNSLISGFRNLGKMDAAIDLYKKMVNDGISCDL 730

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 290 (107.1 bits), Expect = 9.9e-25, P = 9.9e-25
 Identities = 68/266 (25%), Positives = 129/266 (48%)

Query:     3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNA--YNCVLVASAETNDIDLSFQILKDLL 60
             N  I+ LCK  +V  A+ L + +  K I  PN   Y+ ++           + Q+L D++
Sbjct:   264 NTIIDSLCKYRHVDDALNLFKEMETKGI-RPNVVTYSSLISCLCSYGRWSDASQLLSDMI 322

Query:    61 VSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE 120
                   +   +     AF+      +     +++++ +    I   N ++  F    +++
Sbjct:   323 EKKINPNLVTFNALIDAFVKEGKFVEAEKLYDDMIKRSIDPDIFTYNSLVNGFCMHDRLD 382

Query:   121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLL 180
             KA  +F+ +    C PD++TYN ++    +  RV D    F  M   G+V D ++Y TL+
Sbjct:   383 KAKQMFEFMVSKDCFPDVVTYNTLIKGFCKSKRVEDGTELFREMSHRGLVGDTVTYTTLI 442

Query:   181 NNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR 240
               L      D     F++M   G+ PD++TY+ L+D     G +E++L +F+ M++ +I+
Sbjct:   443 QGLFHDGDCDNAQKVFKQMVSDGVPPDIMTYSILLDGLCNNGKLEKALEVFDYMQKSEIK 502

Query:   241 PSIYVYRSLIDNLKKMGKVDLAMTIF 266
               IY+Y ++I+ + K GKVD    +F
Sbjct:   503 LDIYIYTTMIEGMCKAGKVDDGWDLF 528

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 288 (106.4 bits), Expect = 1.6e-24, P = 1.6e-24
 Identities = 67/268 (25%), Positives = 138/268 (51%)

Query:     3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNA--YNCVLVASAETNDIDLSFQILKDLL 60
             N  I+ LCK  ++  A+ L + +  K I  PN   Y+ ++           + ++L D++
Sbjct:   260 NTIIDGLCKYKHMDDALNLFKEMETKGI-RPNVVTYSSLISCLCNYGRWSDASRLLSDMI 318

Query:    61 VSSRTLSSDCYTNFAR--AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ 118
                R ++ D +T  A   AF+      +     +E+V+ +   SI+  + +I  F    +
Sbjct:   319 --ERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDR 376

Query:   119 IEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT 178
             +++A  +F+ +    C PD++TYN ++    +  RV + +  F  M + G+V + ++YN 
Sbjct:   377 LDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNI 436

Query:   179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ 238
             L+  L +    D+    F+EM   G+ P+++TY  L+D   + G +E+++ +F  +++ +
Sbjct:   437 LIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDGLCKNGKLEKAMVVFEYLQRSK 496

Query:   239 IRPSIYVYRSLIDNLKKMGKVDLAMTIF 266
             + P+IY Y  +I+ + K GKV+    +F
Sbjct:   497 MEPTIYTYNIMIEGMCKAGKVEDGWDLF 524

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:504956171 ABO5 "ABA Overly-Sensitive 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 287 (106.1 bits), Expect = 2.2e-24, P = 2.2e-24
 Identities = 58/166 (34%), Positives = 99/166 (59%)

Query:   104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS 163
             ++ N +  A  K +QI     +F+ +K     PD+ TYNI++   GRVG V++ +N F  
Sbjct:   443 MMYNTVFSALGKLKQISHIHDLFEKMKKDGPSPDIFTYNILIASFGRVGEVDEAINIFEE 502

Query:   164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN 223
             ++ +   PD ISYN+L+N L K   +D   + F+EM E G+ PD++TY+ L++ FG+T  
Sbjct:   503 LERSDCKPDIISYNSLINCLGKNGDVDEAHVRFKEMQEKGLNPDVVTYSTLMECFGKTER 562

Query:   224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
             +E +  LF +M  +  +P+I  Y  L+D L+K G+   A+ ++ +M
Sbjct:   563 VEMAYSLFEEMLVKGCQPNIVTYNILLDCLEKNGRTAEAVDLYSKM 608

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008380 "RNA splicing" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

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

 Score = 281 (104.0 bits), Expect = 6.2e-24, P = 6.2e-24
 Identities = 66/273 (24%), Positives = 137/273 (50%)

Query:     6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPN--AYNCVLVASAETNDIDLSFQILKDLLVSS 63
             +   C+   VS AV L+  + +   + P+  AYN ++ +  +T  ++ +F   K++    
Sbjct:   162 VNGFCRRNRVSDAVSLVDKMVEIG-YKPDIVAYNAIIDSLCKTKRVNDAFDFFKEIERKG 220

Query:    64 RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL 123
                +   YT        +   +     + ++++     ++I  + ++ AF K+ ++ +A 
Sbjct:   221 IRPNVVTYTALVNGLCNSSRWSDAARLLSDMIKKKITPNVITYSALLDAFVKNGKVLEAK 280

Query:   124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL 183
              +F+ +  +   PD++TY+ +++ L    R+++    F  M   G + D +SYNTL+N  
Sbjct:   281 ELFEEMVRMSIDPDIVTYSSLINGLCLHDRIDEANQMFDLMVSKGCLADVVSYNTLINGF 340

Query:   184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI 243
              K +R++  +  FREM + G+  + +TY  LI  F + G+++++   F+ M    I P I
Sbjct:   341 CKAKRVEDGMKLFREMSQRGLVSNTVTYNTLIQGFFQAGDVDKAQEFFSQMDFFGISPDI 400

Query:   244 YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL 276
             + Y  L+  L   G+++ A+ IFE+M     DL
Sbjct:   401 WTYNILLGGLCDNGELEKALVIFEDMQKREMDL 433

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 280 (103.6 bits), Expect = 1.2e-23, P = 1.2e-23
 Identities = 69/272 (25%), Positives = 136/272 (50%)

Query:     9 LCKAGNVSAAVRLLQSLRDKNIFLPNA-YNCVLVASAETNDIDLSFQILKDLLVSSRTLS 67
             +CK+G  + A+ LL+ + ++NI L    Y+ ++    +   +D +F +  ++ +      
Sbjct:   238 MCKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKAD 297

Query:    68 SDCYTNFARAFIMT---DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL 124
                Y      F      DD  +LL   + + +  SP +++  + +I +F K  ++ +A  
Sbjct:   298 IITYNTLIGGFCNAGRWDDGAKLLR--DMIKRKISP-NVVTFSVLIDSFVKEGKLREADQ 354

Query:   125 IFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR 184
             +   +      P+ ITYN ++D   +  R+ + +     M   G  PD +++N L+N   
Sbjct:   355 LLKEMMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYC 414

Query:   185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY 244
             K  R+D  L  FREM   G+  + +TY  L+  F ++G +E + +LF +M  +++RP I 
Sbjct:   415 KANRIDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIV 474

Query:   245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL 276
              Y+ L+D L   G+++ A+ IF ++  S  +L
Sbjct:   475 SYKILLDGLCDNGELEKALEIFGKIEKSKMEL 506

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2061310 GUN1 "AT2G31400" [Arabidopsis thaliana (taxid:3702)]

 Score = 282 (104.3 bits), Expect = 1.5e-23, P = 1.5e-23
 Identities = 58/181 (32%), Positives = 99/181 (54%)

Query:    92 EEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV 151
             +E+      + +   N ++ A  K  Q++ A  I   +   +  P++++Y+ V+D   + 
Sbjct:   363 DEMTNRRIEQDVFSYNTLLDAICKGGQMDLAFEILAQMPVKRIMPNVVSYSTVIDGFAKA 422

Query:   152 GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTY 211
             GR ++ LN F  M+  G+  D +SYNTLL+   K+ R +  L   REM   GIK D++TY
Sbjct:   423 GRFDEALNLFGEMRYLGIALDRVSYNTLLSIYTKVGRSEEALDILREMASVGIKKDVVTY 482

Query:   212 TALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS 271
              AL+  +G+ G  +E  ++F +MK++ + P++  Y +LID   K G    AM IF E  S
Sbjct:   483 NALLGGYGKQGKYDEVKKVFTEMKREHVLPNLLTYSTLIDGYSKGGLYKEAMEIFREFKS 542

Query:   272 S 272
             +
Sbjct:   543 A 543

GO:0003677 "DNA binding" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0031930 "mitochondria-nucleus signaling pathway" evidence=IMP

GO:0010019 "chloroplast-nucleus signaling pathway" evidence=IMP

---

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)
Q5BIV3	PPR35_ARATH	No assigned EC number	0.5331	0.9825	0.7683	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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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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	287
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	9e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	7e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-05
pfam01535	31	pfam01535, PPR, PPR repeat	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.001

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

 Score = 76.8 bits (189), Expect = 1e-15
 Identities = 61/270 (22%), Positives = 121/270 (44%), Gaps = 10/270 (3%)

Query: 8   KLCKA-GNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTL 66
           K CK    V  A R  + +R+  +   + +N ++   A + DID + ++L+  LV    L
Sbjct: 414 KACKKQRAVKEAFRFAKLIRNPTL---STFNMLMSVCASSQDIDGALRVLR--LVQEAGL 468

Query: 67  SSDC--YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL 124
            +DC  YT        +     +     E+V      ++     +I   A++ Q+ KA  
Sbjct: 469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFG 528

Query: 125 IFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK-EAG-VVPDFISYNTLLNN 182
            +  ++    KPD + +N ++   G+ G V+   +  A MK E   + PD I+   L+  
Sbjct: 529 AYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA 588

Query: 183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS 242
                ++D     ++ + E  IK     YT  ++S  + G+ + +L +++DMK++ ++P 
Sbjct: 589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPD 648

Query: 243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNSS 272
              + +L+D     G +D A  I ++    
Sbjct: 649 EVFFSALVDVAGHAGDLDKAFEILQDARKQ 678

Length = 1060

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

 Score = 67.2 bits (164), Expect = 2e-12
 Identities = 50/207 (24%), Positives = 97/207 (46%), Gaps = 21/207 (10%)

Query: 71  YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRI-----IFAFAKSRQIEKALLI 125
           +T+      + + C + LIF  +++    P S+ ++  +     I A    ++I      
Sbjct: 458 WTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEI------ 511

Query: 126 FDHIKGLKCKPDLITY--NIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL 183
             H   L+       +  N +LD+  R GR+N   N+F S ++     D +S+N LL   
Sbjct: 512 --HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK-----DVVSWNILLTGY 564

Query: 184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ-QIRPS 242
               +  + +  F  M ESG+ PD +T+ +L+ +  R+G + + L  F+ M+++  I P+
Sbjct: 565 VAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPN 624

Query: 243 IYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           +  Y  ++D L + GK+  A     +M
Sbjct: 625 LKHYACVVDLLGRAGKLTEAYNFINKM 651

Length = 857

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

 Score = 56.6 bits (138), Expect = 4e-11
 Identities = 25/50 (50%), Positives = 38/50 (76%)

Query: 206 PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK 255
           PD++TY  LID + + G +EE+L+LFN+MK++ I+P++Y Y  LID L 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 = 61.8 bits (150), Expect = 9e-11
 Identities = 39/169 (23%), Positives = 83/169 (49%)

Query: 104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS 163
           I V  ++ A A + Q+++A  ++  I     K     Y I ++   + G  +  L+ +  
Sbjct: 580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDD 639

Query: 164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN 223
           MK+ GV PD + ++ L++       LD      ++  + GIK   ++Y++L+ +     N
Sbjct: 640 MKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKN 699

Query: 224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS 272
            +++L L+ D+K  ++RP++    +LI  L +  ++  A+ +  EM   
Sbjct: 700 WKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL 748

Length = 1060

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

 Score = 59.9 bits (145), Expect = 4e-10
 Identities = 49/215 (22%), Positives = 95/215 (44%), Gaps = 9/215 (4%)

Query: 6   IEKLCKAGNVSAAVRLLQSLRDKNIF-LPNAYNCVLVASAETNDIDLSFQILKDLLVSSR 64
           ++    AG V  A  + Q + + NI   P  Y   + + ++  D D +  I  D+    +
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK--KK 643

Query: 65  TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESI----IVVNRIIFAFAKSRQIE 120
            +  D    F  A +        L    E++Q A  + I    +  + ++ A + ++  +
Sbjct: 644 GVKPD--EVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

Query: 121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLL 180
           KAL +++ IK +K +P + T N ++  L    ++   L   + MK  G+ P+ I+Y+ LL
Sbjct: 702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 181 NNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI 215
               +    D+ L    +  E GIKP+L+    + 
Sbjct: 762 VASERKDDADVGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score = 53.2 bits (129), Expect = 8e-10
 Identities = 20/50 (40%), Positives = 32/50 (64%)

Query: 171 PDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR 220
           PD ++YNTL++   K  +++  L  F EM + GIKP++ TY+ LID   +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 52.8 bits (128), Expect = 1e-09
 Identities = 18/50 (36%), Positives = 32/50 (64%)

Query: 136 PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK 185
           PD++TYN ++D   + G+V + L  F  MK+ G+ P+  +Y+ L++ L 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 = 51.8 bits (124), Expect = 2e-07
 Identities = 31/165 (18%), Positives = 76/165 (46%), Gaps = 4/165 (2%)

Query: 104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS 163
           I VN    + ++    + AL I+D +K    KPD + ++ ++D+ G  G ++        
Sbjct: 619 IAVN----SCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

Query: 164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN 223
            ++ G+    +SY++L+      +     L  + ++    ++P + T  ALI +      
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQ 734

Query: 224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEE 268
           + ++L + ++MK+  + P+   Y  L+   ++    D+ + +  +
Sbjct: 735 LPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQ 779

Length = 1060

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

 Score = 44.6 bits (107), Expect = 7e-07
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 202 SGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK 235
            G+KPD++TY  LID   R G ++E++ L ++M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 44.3 bits (106), Expect = 1e-06
 Identities = 14/40 (35%), Positives = 27/40 (67%)

Query: 107 NRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLD 146
           N +I  + K  ++E+AL +F+ +K    KP++ TY+I++D
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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

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

 Score = 41.7 bits (99), Expect = 7e-06
 Identities = 15/34 (44%), Positives = 22/34 (64%)

Query: 210 TYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI 243
           TY  LID   + G +EE+L LF +MK++ I P +
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 44.5 bits (105), Expect = 4e-05
 Identities = 37/171 (21%), Positives = 81/171 (47%), Gaps = 9/171 (5%)

Query: 101 ESIIVVNRIIFAF-AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLN 159
              IV N  +    +K  ++E A  +FD +     + +LI++N ++   G  GR    + 
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVE 412

Query: 160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES-GIKPDLLTYTALIDSF 218
            F  M   GV P+ +++  +L+  R     +     F+ M E+  IKP  + Y  +I+  
Sbjct: 413 MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELL 472

Query: 219 GRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           GR G ++E+  +   +++   +P++ ++ +L+   +    ++L     E++
Sbjct: 473 GREGLLDEAYAM---IRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKL 520

Length = 697

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

 Score = 39.1 bits (92), Expect = 6e-05
 Identities = 9/32 (28%), Positives = 19/32 (59%)

Query: 210 TYTALIDSFGRTGNIEESLRLFNDMKQQQIRP 241
           TY AL+ +  + G+ + +L +  +MK   ++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

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

 Score = 38.2 bits (90), Expect = 1e-04
 Identities = 12/30 (40%), Positives = 21/30 (70%)

Query: 210 TYTALIDSFGRTGNIEESLRLFNDMKQQQI 239
           TY +LI  + + G +EE+L LF +MK++ +
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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.8 bits (98), Expect = 3e-04
 Identities = 40/197 (20%), Positives = 75/197 (38%), Gaps = 35/197 (17%)

Query: 103 IIVVNRIIFAFAKSRQIEKALLIFDH------------IKGL------------------ 132
           ++V N +I  ++K + I+KAL +F +            I GL                  
Sbjct: 424 VVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL 483

Query: 133 KCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC 192
             KP+ +T    L    R+G +       A +   G+  D    N LL+   +  R++  
Sbjct: 484 TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA 543

Query: 193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDN 252
              F     +  + D++++  L+  +   G    ++ LFN M +  + P    + SL+  
Sbjct: 544 WNQF-----NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA 598

Query: 253 LKKMGKVDLAMTIFEEM 269
             + G V   +  F  M
Sbjct: 599 CSRSGMVTQGLEYFHSM 615

Length = 857

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

 Score = 35.5 bits (83), Expect = 0.001
 Identities = 16/34 (47%), Positives = 22/34 (64%)

Query: 139 ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD 172
           +TYN ++D L + GRV + L  F  MKE G+ PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 34/171 (19%), Positives = 75/171 (43%), Gaps = 5/171 (2%)

Query: 100 PESIIVV-NRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDML 158
           PE   V  N ++  +A     E+AL ++  ++      D  T++I++ I  R+  +    
Sbjct: 286 PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

Query: 159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSF 218
              A +   G   D ++   L++   K  R++     F  M     + +L+++ ALI  +
Sbjct: 346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGY 401

Query: 219 GRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM 269
           G  G   +++ +F  M  + + P+   + +++   +  G  +    IF+ M
Sbjct: 402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSM 452

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	287
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
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.93
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.91
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.85
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.8
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.8
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.78
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.77
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.77
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.75
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.75
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.75
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.75
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.74
KOG1126	638	consensus DNA-binding cell division cycle control	99.74
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.74
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.73
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.71
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.71
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.7
PRK14574	822	hmsH outer membrane protein; Provisional	99.69
PRK12370	553	invasion protein regulator; Provisional	99.68
PRK14574	822	hmsH outer membrane protein; Provisional	99.67
KOG1126	638	consensus DNA-binding cell division cycle control	99.67
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.66
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.65
KOG1129	478	consensus TPR repeat-containing protein [General f	99.64
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.63
KOG2076	895	consensus RNA polymerase III transcription factor	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.62
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.61
PRK12370	553	invasion protein regulator; Provisional	99.59
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.59
KOG2003	840	consensus TPR repeat-containing protein [General f	99.55
PF13041	50	PPR_2: PPR repeat family	99.54
KOG1129	478	consensus TPR repeat-containing protein [General f	99.54
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.53
KOG2076	895	consensus RNA polymerase III transcription factor	99.52
PF13041	50	PPR_2: PPR repeat family	99.52
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.52
PRK11189	296	lipoprotein NlpI; Provisional	99.51
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.51
PRK11189	296	lipoprotein NlpI; Provisional	99.5
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.5
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.49
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.48
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.47
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.45
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.43
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.42
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.42
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.4
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.4
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.39
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.36
KOG2003	840	consensus TPR repeat-containing protein [General f	99.35
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.34
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.23
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.2
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.2
PLN02789	320	farnesyltranstransferase	99.19
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.17
PLN02789	320	farnesyltranstransferase	99.16
KOG1125	579	consensus TPR repeat-containing protein [General f	99.16
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.15
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.13
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.13
KOG1125	579	consensus TPR repeat-containing protein [General f	99.13
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.13
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	99.12
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.11
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.11
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.09
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.08
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.07
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.05
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.05
PF12854	34	PPR_1: PPR repeat	99.01
PRK10370	198	formate-dependent nitrite reductase complex subuni	99.01
PF12854	34	PPR_1: PPR repeat	99.0
PRK15359	144	type III secretion system chaperone protein SscB;	99.0
PRK04841	903	transcriptional regulator MalT; Provisional	98.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.95
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.94
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.94
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.94
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.93
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.93
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.93
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.9
PRK15359	144	type III secretion system chaperone protein SscB;	98.89
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.88
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.86
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.86
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.85
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.81
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.8
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.79
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.78
PRK04841	903	transcriptional regulator MalT; Provisional	98.77
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.77
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.76
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.76
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.74
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.73
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.7
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.67
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.67
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.67
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.66
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.62
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.6
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.59
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.58
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.57
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.52
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.52
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.5
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.49
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.49
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.48
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.48
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.48
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.47
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.46
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.46
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.46
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.45
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.4
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.38
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.37
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.37
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.37
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.36
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.35
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.35
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.35
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.34
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.33
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.32
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.29
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.29
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.29
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.26
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.26
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.24
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.24
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.22
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.21
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.21
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	98.21
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.2
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.2
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.2
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	98.19
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.18
KOG0553	304	consensus TPR repeat-containing protein [General f	98.17
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.15
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.15
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	98.14
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.14
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.1
PF12688	120	TPR_5: Tetratrico peptide repeat	98.1
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.07
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.06
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.06
KOG2796	366	consensus Uncharacterized conserved protein [Funct	98.04
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	98.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.98
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.97
PRK10803	263	tol-pal system protein YbgF; Provisional	97.97
PF13371	73	TPR_9: Tetratricopeptide repeat	97.93
KOG0553	304	consensus TPR repeat-containing protein [General f	97.93
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.93
PF12688	120	TPR_5: Tetratrico peptide repeat	97.92
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.88
PRK10803	263	tol-pal system protein YbgF; Provisional	97.84
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.84
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.81
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.75
COG4105	254	ComL DNA uptake lipoprotein [General function pred	97.75
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.71
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.69
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.55
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.54
PF13371	73	TPR_9: Tetratricopeptide repeat	97.54
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.48
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.46
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.45
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.44
PRK15331	165	chaperone protein SicA; Provisional	97.41
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.36
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.35
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.32
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.31
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.24
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.23
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.23
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.18
PRK15331	165	chaperone protein SicA; Provisional	97.13
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	97.13
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.12
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.1
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	97.08
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.06
PF13512	142	TPR_18: Tetratricopeptide repeat	97.03
KOG2610	491	consensus Uncharacterized conserved protein [Funct	97.01
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.96
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.95
KOG3941	406	consensus Intermediate in Toll signal transduction	96.94
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.93
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.93
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.92
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.9
KOG3941	406	consensus Intermediate in Toll signal transduction	96.89
PF13428	44	TPR_14: Tetratricopeptide repeat	96.87
PF13512	142	TPR_18: Tetratricopeptide repeat	96.85
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.83
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.77
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.74
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.73
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.72
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.67
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.65
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.61
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.59
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.53
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.49
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.49
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.47
PF13428	44	TPR_14: Tetratricopeptide repeat	96.47
KOG1585	308	consensus Protein required for fusion of vesicles	96.46
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.42
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.41
KOG4555	175	consensus TPR repeat-containing protein [Function	96.37
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.35
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.27
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.27
PRK11906	458	transcriptional regulator; Provisional	96.27
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.25
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	96.24
PRK11906	458	transcriptional regulator; Provisional	96.16
KOG4555	175	consensus TPR repeat-containing protein [Function	96.16
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.13
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.11
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.11
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.09
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.09
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.08
KOG4570	418	consensus Uncharacterized conserved protein [Funct	96.07
KOG1585	308	consensus Protein required for fusion of vesicles	96.05
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.95
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.91
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.89
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.88
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.78
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.76
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.75
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.69
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.66
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.66
KOG1550	552	consensus Extracellular protein SEL-1 and related	95.51
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.38
PF13431	34	TPR_17: Tetratricopeptide repeat	95.28
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.23
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.07
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.04
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	94.87
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.79
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.67
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.55
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	94.54
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.43
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.37
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.3
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	94.19
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.78
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	93.77
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	93.65
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	93.5
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	93.33
PF13431	34	TPR_17: Tetratricopeptide repeat	93.29
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.03
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.98
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.93
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.81
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	92.8
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.7
COG1747	711	Uncharacterized N-terminal domain of the transcrip	92.67
PF13929	292	mRNA_stabil: mRNA stabilisation	92.62
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.59
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	92.45
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	92.42
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.33
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.27
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.14
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.14
KOG4234	271	consensus TPR repeat-containing protein [General f	92.04
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	92.0
KOG4234	271	consensus TPR repeat-containing protein [General f	91.82
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	91.8
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	91.71
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.67
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.67
KOG3364	149	consensus Membrane protein involved in organellar	91.5
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.39
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	91.14
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	91.11
PRK09687	280	putative lyase; Provisional	91.06
COG5187	412	RPN7 26S proteasome regulatory complex component,	90.54
PF13929	292	mRNA_stabil: mRNA stabilisation	90.5
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.27
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.22
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	90.02
KOG1586	288	consensus Protein required for fusion of vesicles	90.0
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.9
COG4455	273	ImpE Protein of avirulence locus involved in tempe	89.79
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.73
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	89.7
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.57
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.42
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	89.39
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.16
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	88.97
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	88.52
KOG4648	536	consensus Uncharacterized conserved protein, conta	88.39
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	87.93
COG3947	361	Response regulator containing CheY-like receiver a	87.85
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.81
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	87.73
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.65
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.55
KOG4507	886	consensus Uncharacterized conserved protein, conta	87.46
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.16
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	86.68
KOG1258	577	consensus mRNA processing protein [RNA processing	86.53
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.26
KOG2062	929	consensus 26S proteasome regulatory complex, subun	86.17
PHA02875	413	ankyrin repeat protein; Provisional	86.09
PRK10941	269	hypothetical protein; Provisional	86.0
PF08424	321	NRDE-2: NRDE-2, necessary for RNA interference; In	85.93
KOG1258	577	consensus mRNA processing protein [RNA processing	85.79
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	85.71
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	85.69
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.2
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	84.43
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	83.73
PF13762	145	MNE1: Mitochondrial splicing apparatus component	83.12
COG5159	421	RPN6 26S proteasome regulatory complex component [	82.73
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	82.54
COG0735	145	Fur Fe2+/Zn2+ uptake regulation proteins [Inorgani	82.22
COG5108	1117	RPO41 Mitochondrial DNA-directed RNA polymerase [T	82.01
cd00280	200	TRFH Telomeric Repeat binding Factor or TTAGGG Rep	81.84
PRK09687	280	putative lyase; Provisional	81.73
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	81.3
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	81.02
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	80.87
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	80.73
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	80.33
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	80.15
COG5159	421	RPN6 26S proteasome regulatory complex component [	80.1

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.2e-51  Score=356.64  Aligned_cols=272  Identities=18%  Similarity=0.299  Sum_probs=206.7

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      +||.||.+|++.|++++|.++|++|.+.|+.|+ .+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++.+|+
T Consensus       474 tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~  553 (1060)
T PLN03218        474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG  553 (1060)
T ss_pred             HHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            467777777777777777777777777777766 7777777777777777777777777777777777777777777777


Q ss_pred             ccCChHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQ--IASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      +.|++++|.++|++|.+  .|+.||..+|++++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|
T Consensus       554 k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deA  633 (1060)
T PLN03218        554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFA  633 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHH
Confidence            77777777777777765  4566777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          158 LNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .++|++|.+.|+.||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|+.|+.+|++.|++++|.++|++|.+.
T Consensus       634 l~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~  713 (1060)
T PLN03218        634 LSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI  713 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          238 QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      |+.||..+|+.+|.+|++.|++++|.++|++|...
T Consensus       714 g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        714 KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            77777777777777777777777777777777544

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-50  Score=352.14  Aligned_cols=273  Identities=16%  Similarity=0.297  Sum_probs=267.6

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHH--hcCCCCHHHHHHHHHH
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLV--SSRTLSSDCYTNFARA   77 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~   77 (287)
                      +||.||.+|++.|++++|.++|++|.+.+..|+ .+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+
T Consensus       509 TynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            599999999999999999999999999999999 9999999999999999999999999986  5789999999999999


Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      |++.|++++|.++|+.|.+.|++|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|
T Consensus       589 y~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA  668 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA  668 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          158 LNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.
T Consensus       669 ~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          238 QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      |+.||..+|+.++.+|++.|++++|.+++++|.+..
T Consensus       749 Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~G  784 (1060)
T PLN03218        749 GLCPNTITYSILLVASERKDDADVGLDLLSQAKEDG  784 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999997764

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

Probab=100.00  E-value=3.6e-47  Score=328.16  Aligned_cols=268  Identities=18%  Similarity=0.314  Sum_probs=255.1

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +||+||.+|++.|++++|.++|++|...+.   .+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++
T Consensus       261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~---vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~  337 (697)
T PLN03081        261 VSCALIDMYSKCGDIEDARCVFDGMPEKTT---VAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSR  337 (697)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHhCCCCCh---hHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            589999999999999999999999987654   49999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|++++|.+++..|.+.|++||..++++|+++|+++|++++|.++|++|.    .||..+||+||.+|++.|+.++|.++
T Consensus       338 ~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~l  413 (697)
T PLN03081        338 LALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEM  413 (697)
T ss_pred             ccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999997    58999999999999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh-CCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE-SGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI  239 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  239 (287)
                      |++|.+.|+.||..||+.++.+|++.|..++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+++++|   ++
T Consensus       414 f~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~---~~  490 (697)
T PLN03081        414 FERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA---PF  490 (697)
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC---CC
Confidence            99999999999999999999999999999999999999985 699999999999999999999999999999876   47


Q ss_pred             CcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       240 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .|+..+|++++.+|...|+++.|..+++++.+..|+.+.
T Consensus       491 ~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~  529 (697)
T PLN03081        491 KPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLN  529 (697)
T ss_pred             CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCc
Confidence            899999999999999999999999999999888886553

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

Probab=100.00  E-value=2e-46  Score=323.54  Aligned_cols=269  Identities=15%  Similarity=0.303  Sum_probs=137.5

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHH----------
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCY----------   71 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----------   71 (287)
                      ||.|+.+|++.|++++|.++|++|.+.+.   .+|+.++.+|++.|++++|+++|++|.+.|+.|+..+|          
T Consensus       161 ~n~Li~~y~k~g~~~~A~~lf~~m~~~~~---~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~  237 (697)
T PLN03081        161 MNRVLLMHVKCGMLIDARRLFDEMPERNL---ASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL  237 (697)
T ss_pred             HHHHHHHHhcCCCHHHHHHHHhcCCCCCe---eeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC
Confidence            45555555555555555555555543222   25555555555555555555555555544444443333          


Q ss_pred             -------------------------HHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133           72 -------------------------TNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIF  126 (287)
Q Consensus        72 -------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  126 (287)
                                               +.|+.+|++.|++++|.++|+.|.    ++|..+||.++.+|++.|++++|.++|
T Consensus       238 ~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf  313 (697)
T PLN03081        238 GSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLY  313 (697)
T ss_pred             CcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHH
Confidence                                     333344444444444444444432    234444444444444444444444444


Q ss_pred             HHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcC
Q 023133          127 DHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKP  206 (287)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  206 (287)
                      ++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .|
T Consensus       314 ~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~  389 (697)
T PLN03081        314 YEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RK  389 (697)
T ss_pred             HHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CC
Confidence            44444444444444444444444444444444444444444444444444444444444444444444444443    24


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhh
Q 023133          207 DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKD  281 (287)
Q Consensus       207 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  281 (287)
                      |..+|+.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+..+..|+..+
T Consensus       390 d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~  464 (697)
T PLN03081        390 NLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMH  464 (697)
T ss_pred             CeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccc
Confidence            555566666666666666666666666666666666666666666666666666666666666554444444333

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.7e-45  Score=322.46  Aligned_cols=261  Identities=21%  Similarity=0.327  Sum_probs=213.1

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +||+||.+|++.|++++|.++|++|...+.   .+|+.++.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++
T Consensus       325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~---~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~  401 (857)
T PLN03077        325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDA---VSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC  401 (857)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCe---eeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhc
Confidence            589999999999999999999999986544   48999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|+++.+.++++.+.+.|+.++..+++.|+++|++.|++++|.++|++|.    .+|..+|+.++.+|++.|+.++|..+
T Consensus       402 ~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~vs~~~mi~~~~~~g~~~eA~~l  477 (857)
T PLN03077        402 LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP----EKDVISWTSIIAGLRLNNRCFEALIF  477 (857)
T ss_pred             cchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999997    47888999999999999999999999


Q ss_pred             HHHHHHcCCCCChhH-----------------------------------------------------------------
Q 023133          161 FASMKEAGVVPDFIS-----------------------------------------------------------------  175 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~-----------------------------------------------------------------  175 (287)
                      |++|.. ++.||..|                                                                 
T Consensus       478 f~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s  556 (857)
T PLN03077        478 FRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVS  556 (857)
T ss_pred             HHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhh
Confidence            999875 35555544                                                                 


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-hCCCCcchHhHHHHHHHHH
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK-QQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~~~~~li~~~~  254 (287)
                      |+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|. +.|+.|+..+|+.++++|+
T Consensus       557 ~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~  636 (857)
T PLN03077        557 WNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLG  636 (857)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Confidence            555555556666666666666666666666666666666666666666666666666666 4566666666666666666


Q ss_pred             hcCChHHHHHHHHHH
Q 023133          255 KMGKVDLAMTIFEEM  269 (287)
Q Consensus       255 ~~g~~~~a~~~~~~~  269 (287)
                      +.|++++|.+++++|
T Consensus       637 r~G~~~eA~~~~~~m  651 (857)
T PLN03077        637 RAGKLTEAYNFINKM  651 (857)
T ss_pred             hCCCHHHHHHHHHHC
Confidence            666666666666665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.4e-44  Score=318.73  Aligned_cols=261  Identities=17%  Similarity=0.248  Sum_probs=251.6

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +||+||.+|++.|++++|.++|++|...+..   +|+.++.+|++.|++++|+++|++|...|+.||..||+.++.+|++
T Consensus       224 ~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~---s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~  300 (857)
T PLN03077        224 VVNALITMYVKCGDVVSARLVFDRMPRRDCI---SWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL  300 (857)
T ss_pred             hHhHHHHHHhcCCCHHHHHHHHhcCCCCCcc---hhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Confidence            5899999999999999999999999875554   8999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++
T Consensus       301 ~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~l  376 (857)
T PLN03077        301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALET  376 (857)
T ss_pred             cCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999997    58999999999999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      |++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+|+.|+++|++.|++++|.++|++|.+    
T Consensus       377 f~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----  452 (857)
T PLN03077        377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----  452 (857)
T ss_pred             HHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999975    


Q ss_pred             cchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          241 PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      +|..+|+.+|.+|++.|+.++|.++|++|...
T Consensus       453 ~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~  484 (857)
T PLN03077        453 KDVISWTSIIAGLRLNNRCFEALIFFRQMLLT  484 (857)
T ss_pred             CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence            58889999999999999999999999999753

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=1.1e-23  Score=171.44  Aligned_cols=274  Identities=9%  Similarity=0.036  Sum_probs=214.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC---HHHHHHHHHHHhccC
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS---SDCYTNFARAFIMTD   82 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~   82 (287)
                      ...+...|++++|+..|.++.+.++....++..+...+...|++++|..+++.+...+..++   ...+..+...+...|
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            34456778999999999999887764447888888899999999999999998886532221   245677888888999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH----hhHHHHHHHHHhcCCHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL----ITYNIVLDILGRVGRVNDML  158 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~  158 (287)
                      +++.|..+|+++.+.. +.+..+++.++..+.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999988764 566778888999999999999999999988775422221    23456777788899999999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..|+++.+... .+...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|.+.++++.+. 
T Consensus       201 ~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  278 (389)
T PRK11788        201 ALLKKALAADP-QCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE-  278 (389)
T ss_pred             HHHHHHHhHCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            99999887642 2456777788889999999999999999887532222456788888999999999999999998875 


Q ss_pred             CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          239 IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       239 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                       .|+...+..++..+.+.|++++|..+++++.+..|+.+....+.
T Consensus       279 -~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~  322 (389)
T PRK11788        279 -YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLL  322 (389)
T ss_pred             -CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence             46666678888889999999999999999888888776554433

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=1.5e-22  Score=164.87  Aligned_cols=264  Identities=11%  Similarity=0.101  Sum_probs=222.6

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARA   77 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   77 (287)
                      |..+...+...|++++|..+++.+......++    ..+..++..+.+.|+++.|..+|+++.+. .+++..++..++..
T Consensus        72 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~  150 (389)
T PRK11788         72 HLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDE-GDFAEGALQQLLEI  150 (389)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            56788899999999999999999987654332    46788899999999999999999999875 24567789999999


Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPES----IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                      +...|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|...|+++.+.. +.+...+..+...+.+.|+
T Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~  229 (389)
T PRK11788        151 YQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGD  229 (389)
T ss_pred             HHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCC
Confidence            9999999999999999988763332    2345677888899999999999999998764 3346678888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          154 VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFND  233 (287)
Q Consensus       154 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  233 (287)
                      +++|.++|+++.+.+......+++.++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|..++++
T Consensus       230 ~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~  307 (389)
T PRK11788        230 YAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLRE  307 (389)
T ss_pred             HHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            9999999999987643333567888999999999999999999999886  46767778899999999999999999999


Q ss_pred             HHhCCCCcchHhHHHHHHHHHh---cCChHHHHHHHHHHhh
Q 023133          234 MKQQQIRPSIYVYRSLIDNLKK---MGKVDLAMTIFEEMNS  271 (287)
Q Consensus       234 ~~~~~~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~  271 (287)
                      +.+.  .|+...+..++..+..   .|+.+++..+++++.+
T Consensus       308 ~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        308 QLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVG  346 (389)
T ss_pred             HHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHH
Confidence            9875  6888899888887764   5689999999998864

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

Probab=99.91  E-value=4.5e-21  Score=171.84  Aligned_cols=264  Identities=13%  Similarity=0.119  Sum_probs=132.7

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      +...+.+.|+.++|...|+++...++.....+..++..+.+.|++++|..+++.+... .+.+...|..+..++...|++
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCH
Confidence            3444444444444444444444433322244444455555555555555555555432 233444555555555555555


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ++|...++++.+.. +.+...+..+...+.+.|++++|..+++++.+.. +.+..++..+...+...|++++|..+++.+
T Consensus       618 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  695 (899)
T TIGR02917       618 NKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSL  695 (899)
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            55555555555443 3344445555555555555555555555554432 223444555555555555555555555555


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY  244 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  244 (287)
                      .+.+. ++...+..+...+...|++++|.+.++.+.+.+  |+..++..+..++.+.|++++|.+.++++.+.. +.+..
T Consensus       696 ~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~  771 (899)
T TIGR02917       696 QKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAV  771 (899)
T ss_pred             HhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH
Confidence            44432 234445555555555555555555555555442  333444445555555555555555555555432 33444


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+..+...|...|++++|.+.|+++.+..|+
T Consensus       772 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~  802 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIKHYRTVVKKAPD  802 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHhCCC
Confidence            5555555555555555555555555555544

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=7e-21  Score=170.62  Aligned_cols=267  Identities=12%  Similarity=0.128  Sum_probs=147.0

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      ..++..|...|++++|..+++.+....+..+.+|..+..++...|++++|...++++.+.. +.+...+..+..++...|
T Consensus       571 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  649 (899)
T TIGR02917       571 LALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMK  649 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC
Confidence            4566666677777777777777666554444666667777777777777777777666542 234455556666666666


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      ++++|...++++.+.. +.+..++..++..+...|++++|.++++.+.+.+ +++...+..+...+...|++++|...|+
T Consensus       650 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~  727 (899)
T TIGR02917       650 NYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYR  727 (899)
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            6666666666666554 3445555556666666666666666665555443 2344445555555555555555555555


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ----  238 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----  238 (287)
                      .+...+  |+..++..+..++.+.|++++|.+.++.+.+.. +.+...+..+...|...|++++|...|+++.+..    
T Consensus       728 ~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~  804 (899)
T TIGR02917       728 KALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNA  804 (899)
T ss_pred             HHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCH
Confidence            554432  222334444444444444444444444444332 2333444444444444444444444444444331    


Q ss_pred             ----------------------------CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          239 ----------------------------IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       239 ----------------------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                                                  .+.+..++..+...+...|++++|.++|+++.+..|.
T Consensus       805 ~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       805 VVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence                                        1122334445555566666666666666666666555

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=9.7e-19  Score=149.87  Aligned_cols=265  Identities=9%  Similarity=0.043  Sum_probs=130.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      +.+....|++++|...|+++...++..+.++..+...+.+.|++++|...+++..... +.+...+..+..++...|+++
T Consensus        83 ~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~  161 (656)
T PRK15174         83 VISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKEL  161 (656)
T ss_pred             hhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChH
Confidence            3444455666666666666655554444555555555566666666666666555431 223344445555555555555


Q ss_pred             HHHHHHHHHHhcCC---------------------------------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           86 QLLIFIEEVVQIAS---------------------------------PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        86 ~a~~~~~~~~~~~~---------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      +|...++.+.....                                 .++......+...+...|++++|...+++..+.
T Consensus       162 eA~~~~~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~  241 (656)
T PRK15174        162 QAISLARTQAQEVPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR  241 (656)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            55555555544331                                 122222222333444444444444444444433


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHH----HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH
Q 023133          133 KCKPDLITYNIVLDILGRVGRVND----MLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL  208 (287)
Q Consensus       133 ~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  208 (287)
                      . +.+...+..+...+...|++++    |...|+...+.... +...+..+...+...|++++|...+++..+.. +.+.
T Consensus       242 ~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~  318 (656)
T PRK15174        242 G-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLP  318 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            2 2233344444445555555543    45555555443221 34445555555555555555555555555442 2233


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcch-HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI-YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      ..+..+..++.+.|++++|...++++.+.  .|+. ..+..+..++...|++++|.+.|+++.+..|+.
T Consensus       319 ~a~~~La~~l~~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        319 YVRAMYARALRQVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence            34444555555556666665555555543  2332 222223444555566666666666655555544

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=7.1e-19  Score=150.70  Aligned_cols=266  Identities=9%  Similarity=0.026  Sum_probs=175.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      ++..+.+.|++++|..+++......+.++.++..++.+....|+++.|+..++++.... +.+...+..+...+...|++
T Consensus        48 ~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~  126 (656)
T PRK15174         48 FAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQY  126 (656)
T ss_pred             HHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCH
Confidence            56678899999999999999999988877788888888889999999999999999763 34567788888999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ++|...++++.+.. +.+...+..+...+...|++++|...++.+.... +.+...+..+ ..+...|++++|...++.+
T Consensus       127 ~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~  203 (656)
T PRK15174        127 ATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSFLNKSRLPEDHDLARAL  203 (656)
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHH
Confidence            99999999999875 5677888889999999999999999998876553 1222233222 2356667777777777666


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCC
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE----SLRLFNDMKQQQIR  240 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~  240 (287)
                      .+....++...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++    |...|++..+.. +
T Consensus       204 l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P  281 (656)
T PRK15174        204 LPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-S  281 (656)
T ss_pred             HhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-C
Confidence            554322233333334445555555555555555555432 2233344444444555555443    444444444321 1


Q ss_pred             cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          241 PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .+...+..+...+...|++++|...++++....|+.
T Consensus       282 ~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~  317 (656)
T PRK15174        282 DNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDL  317 (656)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            223344444444444444444444444444444443

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

Probab=99.85  E-value=1.1e-18  Score=140.00  Aligned_cols=270  Identities=12%  Similarity=0.104  Sum_probs=235.2

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHh
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFI   79 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~   79 (287)
                      .|+.|...+-..|+...|+.-|++..+.++.-..+|..|...|...+.+++|+..|.+....  .|+ ...+..+...|.
T Consensus       220 awsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rpn~A~a~gNla~iYy  297 (966)
T KOG4626|consen  220 AWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RPNHAVAHGNLACIYY  297 (966)
T ss_pred             eehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CCcchhhccceEEEEe
Confidence            36778888899999999999999998887655589999999999999999999999998764  454 556777888889


Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLN  159 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  159 (287)
                      ..|..+.|+..+++.++.. |.-...|+.|..++...|++.+|+..|.+..... +....+.+.|...|...|.+++|..
T Consensus       298 eqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~  375 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATR  375 (966)
T ss_pred             ccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHH
Confidence            9999999999999999886 5567899999999999999999999999988764 3345688999999999999999999


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL-LTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      +|....+.... -....+.|...|.+.|++++|...|++.+..  .|+. ..|+.+...|-..|+.+.|.+.+.+.+.. 
T Consensus       376 ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~-  451 (966)
T KOG4626|consen  376 LYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI-  451 (966)
T ss_pred             HHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc-
Confidence            99998875322 3467899999999999999999999998865  6764 58999999999999999999999999874 


Q ss_pred             CCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          239 IRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       239 ~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                       .|. ...++.|...|..+|++.+|..-|++..+..||.|..
T Consensus       452 -nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA  492 (966)
T KOG4626|consen  452 -NPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDA  492 (966)
T ss_pred             -CcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchh
Confidence             565 4689999999999999999999999999999998863

>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=99.84  E-value=1e-16  Score=137.55  Aligned_cols=190  Identities=13%  Similarity=0.045  Sum_probs=146.6

Q ss_pred             CChHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-HhhHHHHHHHHHhcCCHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIA--SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-LITYNIVLDILGRVGRVNDML  158 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~  158 (287)
                      +++++|.+.|+...+.+  .+.....++.+...+...|++++|...|++..+.  .|+ ...|..+...+...|++++|.
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            34556666666665543  1234456777777788888899999888888765  344 557778888888899999999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..|+...+.... +...|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+. 
T Consensus       386 ~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-  462 (615)
T TIGR00990       386 EDFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-  462 (615)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            999888776432 56788888888889999999999999888764 345667778888888999999999999988864 


Q ss_pred             CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          239 IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       239 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .+.+...+..+...+...|++++|.+.|++.....|..
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~  500 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKET  500 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCcc
Confidence            24456788888888999999999999999988877754

>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=99.84  E-value=5.4e-17  Score=139.28  Aligned_cols=258  Identities=12%  Similarity=0.011  Sum_probs=210.2

Q ss_pred             cCChhHHHHHHHHHhhcCCC-Cc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChHHH
Q 023133           12 AGNVSAAVRLLQSLRDKNIF-LP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCTQL   87 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~-~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a   87 (287)
                      .+++++|.+.|+.....+.. |.  ..|..+...+...|++++|+..+++.+..  .|+ ...|..+...+...|++++|
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA  384 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKA  384 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHH
Confidence            36899999999999876532 22  67888889999999999999999999875  344 56788888899999999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      ...++++++.. +.+..+|..+...+...|++++|...|++..+.. +.+...+..+..++.+.|++++|+..|++..+.
T Consensus       385 ~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  462 (615)
T TIGR00990       385 EEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN  462 (615)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999998876 5678899999999999999999999999998774 345667888889999999999999999999875


Q ss_pred             CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHH------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 023133          168 GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLL------TYTALIDSFGRTGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       168 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      .. .+...++.+...+...|++++|...|++..+.....+..      .++.....+...|++++|.+++++..+.. +.
T Consensus       463 ~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~-p~  540 (615)
T TIGR00990       463 FP-EAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID-PE  540 (615)
T ss_pred             CC-CChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC-CC
Confidence            42 256788999999999999999999999988753111111      12222333445799999999999988753 23


Q ss_pred             chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          242 SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      +...+..+...+.+.|++++|.++|+++.+..+.
T Consensus       541 ~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~  574 (615)
T TIGR00990       541 CDIAVATMAQLLLQQGDVDEALKLFERAAELART  574 (615)
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhcc
Confidence            4457888999999999999999999999777553

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

Probab=99.80  E-value=6.3e-19  Score=136.83  Aligned_cols=260  Identities=14%  Similarity=0.152  Sum_probs=113.2

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcC-CCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKN-IFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~-~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      +...+.+.|++++|+++++...... +..+ ..|..+...+...++++.|...++++...+.. ++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            4567788999999999996654443 2233 67777888888899999999999999876533 55667777776 7889


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK-CKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      ++++|.++++...+..  ++...+..++..+.+.++++++..+++.+.... .+++...|..+...+.+.|++++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             cccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999998876653  556677888899999999999999999976532 2456778888999999999999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      ++..+.... |......++..+...|+.+++.+++....+.. +.|...+..+..+|...|+.++|..+|++..+.. +.
T Consensus       170 ~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~  246 (280)
T PF13429_consen  170 RKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PD  246 (280)
T ss_dssp             HHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT
T ss_pred             HHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cc
Confidence            999887533 57788889999999999999999998887653 4555678889999999999999999999998752 45


Q ss_pred             chHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          242 SIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      |......+.+++...|+.++|.++.+++..
T Consensus       247 d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  247 DPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HHHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccccc
Confidence            888899999999999999999999988743

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.80  E-value=1.1e-15  Score=139.41  Aligned_cols=267  Identities=13%  Similarity=0.062  Sum_probs=193.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHH------------
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTN------------   73 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------   73 (287)
                      ...+.+.|++++|+..|++.....+....++..+...+...|++++|++.|++.++... .+...+..            
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p-~~~~a~~~L~~l~~~~~~~~  436 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDP-GNTNAVRGLANLYRQQSPEK  436 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhcCHHH
Confidence            34677899999999999999988765557788889999999999999999999886532 22222222            


Q ss_pred             ------------------------------HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 023133           74 ------------------------------FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL  123 (287)
Q Consensus        74 ------------------------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  123 (287)
                                                    +...+...|++++|.+.+++.++.. |.+..++..+...|.+.|++++|.
T Consensus       437 A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~  515 (1157)
T PRK11447        437 ALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQAD  515 (1157)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence                                          2233446789999999999988876 556778888899999999999999


Q ss_pred             HHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------------------------------------
Q 023133          124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA------------------------------------  167 (287)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------------------------------------  167 (287)
                      ..++++.+.. +.+...+..+...+...+++++|...++.+...                                    
T Consensus       516 ~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~  594 (1157)
T PRK11447        516 ALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEA  594 (1157)
T ss_pred             HHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHH
Confidence            9999887653 223333333333334445555554444332110                                    


Q ss_pred             ---CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH
Q 023133          168 ---GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY  244 (287)
Q Consensus       168 ---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  244 (287)
                         ..+++...+..+...+.+.|+.++|...|++..+.. +.+...+..++..|...|++++|.+.++.+.+.. +.+..
T Consensus       595 ~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~  672 (1157)
T PRK11447        595 LLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLN  672 (1157)
T ss_pred             HHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChH
Confidence               012344566677788888899999999999888764 4467788888889999999999999999887642 23455


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .+..+..++...|++++|.++++++....|+.+
T Consensus       673 ~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~  705 (1157)
T PRK11447        673 TQRRVALAWAALGDTAAAQRTFNRLIPQAKSQP  705 (1157)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCC
Confidence            667777888889999999999999887766544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.78  E-value=4.9e-15  Score=120.27  Aligned_cols=251  Identities=14%  Similarity=0.069  Sum_probs=183.2

Q ss_pred             cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHH--HHHHHHhccCChHHHHH
Q 023133           12 AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYT--NFARAFIMTDDCTQLLI   89 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~   89 (287)
                      .|+++.|.+.+....+....|.-.|.....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            589999998888876654434344544455668889999999999998764  45543332  33567788899999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---------------------------------
Q 023133           90 FIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP---------------------------------  136 (287)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------------------------  136 (287)
                      .++++.+.. |.+..+...+...|.+.|++++|.+++..+.+.+..+                                 
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999998887 6678888899999999999999998888887654321                                 


Q ss_pred             --------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH
Q 023133          137 --------DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL  208 (287)
Q Consensus       137 --------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  208 (287)
                              +......+...+...|+.++|.+++++..+.  .|+...  .++.+....++.+++.+..+...+.. +-|.
T Consensus       254 ~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~  328 (398)
T PRK10747        254 NQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GDTP  328 (398)
T ss_pred             hCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CCCH
Confidence                    1222334455666778888888888777664  334321  22333445577888888888777653 3455


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      .....+...+.+.+++++|.+.|+...+.  .|+...+..+...+.+.|+.++|.+++++....
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~  390 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLML  390 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56777888888888888888888888874  688888888888888888888888888887654

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

Probab=99.77  E-value=1.6e-16  Score=127.77  Aligned_cols=268  Identities=16%  Similarity=0.176  Sum_probs=179.4

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHH-HHHHHHh
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYT-NFARAFI   79 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~   79 (287)
                      +|+.+...+-..|++++|+.+++.+.+..+..-++|..+..++...|+.+.|.+.|.+.++.  .|+..... .+...+.
T Consensus       118 ~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlk  195 (966)
T KOG4626|consen  118 AYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLK  195 (966)
T ss_pred             HHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHH
Confidence            36778899999999999999999999887655589999999999999999999999888763  44433222 1222233


Q ss_pred             cc----------------------------------CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 023133           80 MT----------------------------------DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLI  125 (287)
Q Consensus        80 ~~----------------------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  125 (287)
                      ..                                  |+...|++.|++..+.. |.-...|-.|...|...+.++.|...
T Consensus       196 a~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld-P~f~dAYiNLGnV~ke~~~~d~Avs~  274 (966)
T KOG4626|consen  196 AEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD-PNFLDAYINLGNVYKEARIFDRAVSC  274 (966)
T ss_pred             hhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC-CcchHHHhhHHHHHHHHhcchHHHHH
Confidence            33                                  44444555555444443 22334455555555555555555555


Q ss_pred             HHHHhcCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCC
Q 023133          126 FDHIKGLKCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGI  204 (287)
Q Consensus       126 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  204 (287)
                      |.+....  .| ....+..+...|...|..+-|+..+++..+.... -...|+.|..++-..|+..+|.+.|.+.+... 
T Consensus       275 Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-  350 (966)
T KOG4626|consen  275 YLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLC-  350 (966)
T ss_pred             HHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhC-
Confidence            5554433  23 2334555555566667777777777776664322 24577777777777788888888887777652 


Q ss_pred             cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          205 KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +-...+.+.|...|...|.+++|..+|....+-  .|. ...++.|...|-+.|++++|...|+++.+..|...
T Consensus       351 p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fA  422 (966)
T KOG4626|consen  351 PNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFA  422 (966)
T ss_pred             CccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHH
Confidence            223446677777888888888888888777763  344 45677788888888888888888888888777554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.77  E-value=6.4e-15  Score=134.54  Aligned_cols=260  Identities=12%  Similarity=0.034  Sum_probs=207.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCC
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDD   83 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   83 (287)
                      .+...+...|++++|++.|++..+.++..+..+..+...+.+.|++++|...++++.+.. +.+...+..+...+...++
T Consensus       466 ~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~  544 (1157)
T PRK11447        466 QQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDR  544 (1157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCC
Confidence            355667789999999999999999887666788899999999999999999999998653 2345555555556778899


Q ss_pred             hHHHHHHHHHHHhcCCCCcHH---------HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCH
Q 023133           84 CTQLLIFIEEVVQIASPESII---------VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRV  154 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~---------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  154 (287)
                      .++|...++.+......++..         .+..+...+...|+.++|..+++.     .+.+...+..+...+.+.|++
T Consensus       545 ~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~  619 (1157)
T PRK11447        545 DRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDY  619 (1157)
T ss_pred             HHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCH
Confidence            999999998765432222221         223456778899999999999882     145666778889999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          155 NDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       155 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      ++|+..|+...+.... +...+..+...+...|+.++|.+.++.+.+.. +.+......+..++...|++++|.++++.+
T Consensus       620 ~~A~~~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~~~~~a  697 (1157)
T PRK11447        620 AAARAAYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQRTFNRL  697 (1157)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            9999999999887543 67889999999999999999999999888653 334566777888999999999999999999


Q ss_pred             HhCCC--Cc---chHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          235 KQQQI--RP---SIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       235 ~~~~~--~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      .+...  .|   +...+..+...+...|++++|.+.|+++..
T Consensus       698 l~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        698 IPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             hhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            86521  12   234566678888999999999999999964

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.75  E-value=3.2e-14  Score=124.70  Aligned_cols=115  Identities=10%  Similarity=0.051  Sum_probs=66.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      ..+...+...|++++|.++|++.....+..+..+..++..+...|++++|+..+++..+.. +.+.. +..+..++...|
T Consensus        53 ~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g  130 (765)
T PRK10049         53 AAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAG  130 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCC
Confidence            4455566666777777777776666554444555566666666667777776666666542 22334 555566666666


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE  120 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  120 (287)
                      +.++|+..++++.+.. |.+...+..+..++...+..+
T Consensus       131 ~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e  167 (765)
T PRK10049        131 RHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSA  167 (765)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChH
Confidence            6666666666666654 333344444444444444433

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

Probab=99.75  E-value=9.7e-18  Score=130.17  Aligned_cols=236  Identities=13%  Similarity=0.075  Sum_probs=107.5

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 023133           38 CVLVASAETNDIDLSFQILKDLLVSSRTL-SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS  116 (287)
Q Consensus        38 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  116 (287)
                      .+...+.+.|++++|++++.+......+| +...|..+...+...++++.|.+.++++...+ +.++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            55788889999999999997665544234 44455556667778899999999999999876 4467778888877 789


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCChhHHHHHHHHHHhcCchHHHHHH
Q 023133          117 RQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG-VVPDFISYNTLLNNLRKIRRLDLCLIY  195 (287)
Q Consensus       117 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  195 (287)
                      +++++|.+++....+.  .++...+..++..+...++++++..+++.+.... .+++...|..+...+.+.|+.++|.+.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999877654  3566778888899999999999999999987543 345777888899999999999999999


Q ss_pred             HHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          196 FREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       196 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      +++..+.. +.|......++..+...|+.+++.+++....+.. +.|...+..+..++...|+.++|+.+|++.....|+
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~  246 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD  246 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccccc
Confidence            99999873 3357788889999999999999999999988753 566778889999999999999999999999999887


Q ss_pred             CCCh
Q 023133          276 LAGP  279 (287)
Q Consensus       276 ~~~~  279 (287)
                      +|..
T Consensus       247 d~~~  250 (280)
T PF13429_consen  247 DPLW  250 (280)
T ss_dssp             -HHH
T ss_pred             cccc
Confidence            7653

>TIGR00540 hemY_coli hemY protein

Probab=99.75  E-value=3.3e-14  Score=116.05  Aligned_cols=256  Identities=11%  Similarity=-0.017  Sum_probs=163.1

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIF   90 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   90 (287)
                      ..|+++.|.+.+.+..+..+.|...+-....+..+.|+++.|.+.+.+..+....+...........+...|+++.|...
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~  175 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHG  175 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            46778888887777766654443444555666677788888888877776543222222333345666777788888888


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC----------------------------------
Q 023133           91 IEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP----------------------------------  136 (287)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----------------------------------  136 (287)
                      ++.+.+.. |.+..++..+...+...|++++|.+.+..+.+.++.+                                  
T Consensus       176 l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~  254 (409)
T TIGR00540       176 VDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKN  254 (409)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            87777775 5566677777777778888877777777766554221                                  


Q ss_pred             -------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhH---HHHHHHHHHhcCchHHHHHHHHHHhhCCCcC
Q 023133          137 -------DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFIS---YNTLLNNLRKIRRLDLCLIYFREMGESGIKP  206 (287)
Q Consensus       137 -------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  206 (287)
                             +...+..+...+...|+.++|.+++++..+..  ||...   ...........++.+.+.+.++...+.. +-
T Consensus       255 ~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~  331 (409)
T TIGR00540       255 QPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DD  331 (409)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CC
Confidence                   33334444555666777777777777776653  23221   1111122233456667777776666541 22


Q ss_pred             CH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 023133          207 DL--LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       207 ~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (287)
                      |.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++..
T Consensus       332 ~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       332 KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33  44556777788888888888888853333346777777788888888888888888888763

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.

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.75  E-value=2.7e-14  Score=125.15  Aligned_cols=202  Identities=10%  Similarity=-0.001  Sum_probs=131.0

Q ss_pred             HhccCChHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-----HhhHHHHHHHHHhc
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-----LITYNIVLDILGRV  151 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~  151 (287)
                      +...+++++|+..|+.+.+.+.+ |+ .....+...|...|++++|+..|+++.+..  |.     ......+..++...
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~~~~~P~-~a~~~la~~yl~~g~~e~A~~~l~~~l~~~--p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAEGQIIPP-WAQRWVASAYLKLHQPEKAQSILTELFYHP--ETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHhcCCcHHHHHHHHHHhhcC--CCCCCCChHHHHHHHHHHHhc
Confidence            34556777777777777666522 22 122224566777777777777777766542  22     23344555566777


Q ss_pred             CCHHHHHHHHHHHHHcCC-----------CCC---hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHH
Q 023133          152 GRVNDMLNEFASMKEAGV-----------VPD---FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDS  217 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~~~~-----------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  217 (287)
                      |++++|..+++.+.....           .|+   ...+..+...+...|+.++|.+.++++.... +.+...+..+...
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l  402 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASV  402 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            777877777777765421           122   1234455666777778888888877776653 4455667777777


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHhh
Q 023133          218 FGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKR  284 (287)
Q Consensus       218 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  284 (287)
                      +...|++++|++.+++..+.. +-+...+...+..+...|++++|..+++++.+..|+++....+.+
T Consensus       403 ~~~~g~~~~A~~~l~~al~l~-Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~~~~~~  468 (765)
T PRK10049        403 LQARGWPRAAENELKKAEVLE-PRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGVQRLAR  468 (765)
T ss_pred             HHhcCCHHHHHHHHHHHHhhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            778888888888888777642 223556666666777788888888888888888888777665544

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.74  E-value=3.6e-14  Score=125.30  Aligned_cols=236  Identities=10%  Similarity=-0.036  Sum_probs=188.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..|..+..++.. +++++|+..+.+....  .|+......+...+...|++++|...++++...  +|+...+..+...+
T Consensus       478 ~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        478 AAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             HHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            678888888876 7888899988888765  456554444555567899999999999987665  34445566778888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      .+.|++++|...+++..+.. ++....+..+.......|++++|...+++..+..  |+...+..+..++.+.|+.++|.
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~  629 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAV  629 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999999998764 2233333334444556699999999999998764  56788999999999999999999


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      ..+++..+.. +.+...++.+..++...|++++|+..+++..+.. +-+...+..+..++...|++++|...|+++....
T Consensus       630 ~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        630 SDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999998874 4466778888889999999999999999998752 3456788899999999999999999999999998


Q ss_pred             CCCCCh
Q 023133          274 SDLAGP  279 (287)
Q Consensus       274 ~~~~~~  279 (287)
                      |+....
T Consensus       708 P~~a~i  713 (987)
T PRK09782        708 DNQALI  713 (987)
T ss_pred             CCCchh
Confidence            877653

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

Probab=99.74  E-value=2.5e-15  Score=121.60  Aligned_cols=209  Identities=13%  Similarity=0.132  Sum_probs=172.2

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHH
Q 023133           65 TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIV  144 (287)
Q Consensus        65 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  144 (287)
                      +-.+.+|..+.++|+-+++.+.|++.|++.++.+ +....+|+.+..-+....++|.|...|+...... +.+-..|.-+
T Consensus       418 ~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGl  495 (638)
T KOG1126|consen  418 PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGL  495 (638)
T ss_pred             CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhh
Confidence            4457899999999999999999999999999886 5688999999999999999999999999887431 1122355567


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      .-.|.+.++++.|.-.|+...+-+.. +.+....+...+-+.|+.++|++++++..... +-|+..--.-+..+...+++
T Consensus       496 G~vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~  573 (638)
T KOG1126|consen  496 GTVYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRY  573 (638)
T ss_pred             hhheeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcch
Confidence            78899999999999999999987654 66777888888999999999999999998765 33554444556677788999


Q ss_pred             HHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          225 EESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       225 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      ++|+..++++++. ++-+..+|..+...|.+.|+.+.|+.-|.-+.+..|....
T Consensus       574 ~eal~~LEeLk~~-vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  574 VEALQELEELKEL-VPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHHHHHHHh-CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            9999999999985 3444567888889999999999999999999888876544

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

Probab=99.74  E-value=3.5e-14  Score=105.83  Aligned_cols=261  Identities=11%  Similarity=0.027  Sum_probs=190.4

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC---HHHHHHHHHHHhccCChHH
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS---SDCYTNFARAFIMTDDCTQ   86 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~   86 (287)
                      .-..+.++|.++|-+|.+.++...++...|.+.|.+.|..++|+++.+.+.++.--+.   ......|.+-|...|-++.
T Consensus        46 LLs~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             HhhcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3467889999999999987654448888999999999999999999999886532221   1244557778889999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh----hHHHHHHHHHhcCCHHHHHHHHH
Q 023133           87 LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI----TYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        87 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      |+.+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.+-.+...    .|.-+...+....+.+.|..++.
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            999999998876 4556778889999999999999999999888765443322    34555666666778889999998


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      +..+.+.+ .+..-..+.+.....|+++.|.+.++.+.+.+...-..+...|..+|...|+.++...++..+.+.  .+.
T Consensus       205 kAlqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~--~~g  281 (389)
T COG2956         205 KALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET--NTG  281 (389)
T ss_pred             HHHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--cCC
Confidence            88776544 445555677788889999999999999888754444567778888999999999988888888764  233


Q ss_pred             hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      ...-..+...-....-.+.|..++.+-.+..|
T Consensus       282 ~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~P  313 (389)
T COG2956         282 ADAELMLADLIELQEGIDAAQAYLTRQLRRKP  313 (389)
T ss_pred             ccHHHHHHHHHHHhhChHHHHHHHHHHHhhCC
Confidence            33333333333333334455554444444433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.73  E-value=5e-14  Score=124.45  Aligned_cols=264  Identities=8%  Similarity=-0.072  Sum_probs=207.8

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..+...+.. |+.++|+..|.+.....+. ......+...+.+.|++++|...++++...  +|+...+..+..++.+.
T Consensus       480 ~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd-~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~  555 (987)
T PRK09782        480 WNRLAKCYRD-TLPGVALYAWLQAEQRQPD-AWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAA  555 (987)
T ss_pred             HHHHHHHHHh-CCcHHHHHHHHHHHHhCCc-hHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHC
Confidence            3445555655 8899999988888776643 123333445556899999999999997653  45555566777888999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      |++++|...+++..+.. +.....+..+.......|++++|...+++..+.  .|+...+..+..++.+.|++++|...+
T Consensus       556 Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l  632 (987)
T PRK09782        556 GNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDL  632 (987)
T ss_pred             CCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            99999999999998876 344444444445555669999999999999877  577888999999999999999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      ++..+.... +...++.+...+...|+.++|...+++..+.. +-+...+..+..++...|++++|...+++..+.  .|
T Consensus       633 ~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P  708 (987)
T PRK09782        633 RAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--ID  708 (987)
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CC
Confidence            999987543 66788888889999999999999999998864 446678889999999999999999999999975  45


Q ss_pred             ch-HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          242 SI-YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       242 ~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      +. .+.........+..+++.|.+-+++.....|+.
T Consensus       709 ~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~~~  744 (987)
T PRK09782        709 NQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSFDS  744 (987)
T ss_pred             CCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCccc
Confidence            44 455556666777778888888888876665543

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

Probab=99.71  E-value=1.9e-13  Score=104.66  Aligned_cols=254  Identities=15%  Similarity=0.088  Sum_probs=191.2

Q ss_pred             cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 023133           12 AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFI   91 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   91 (287)
                      .|++.+|+++..+-.+.+..|.-.|..-+.+.-+.|+.+.+-.++.+.-+..-.++....-...+.....|+++.|..-+
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            79999999999998888877767777778888899999999999999987644556666667778888999999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh-------hHHHHHH------------------
Q 023133           92 EEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI-------TYNIVLD------------------  146 (287)
Q Consensus        92 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~------------------  146 (287)
                      +++.+.+ +..+.+......+|.+.|++.....+...+.+.|.-.+..       +|+.++.                  
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            9999987 6778899999999999999999999999998887544432       3443333                  


Q ss_pred             ----------------HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH
Q 023133          147 ----------------ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT  210 (287)
Q Consensus       147 ----------------~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  210 (287)
                                      -+.+.|+.++|.++..+..+.+..|+   .. ..-.+.+-++...-.+..+.-.+.. +.++..
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~-~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L  330 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LC-RLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLL  330 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HH-HHHhhcCCCCchHHHHHHHHHHHhC-CCChhH
Confidence                            34445555555555555554444333   11 1112333444444444444333221 234467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      +.+|...|.+.+.+.+|.+.|+...+.  .|+..+|..+.+++.+.|+..+|.++.++.....
T Consensus       331 ~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~  391 (400)
T COG3071         331 LSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALLLT  391 (400)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            788999999999999999999988874  7999999999999999999999999999986543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.71  E-value=8.7e-14  Score=107.63  Aligned_cols=159  Identities=17%  Similarity=0.192  Sum_probs=118.0

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      +|..||.++|+-...+.|.+++++......... ++||.+|.+-.-.    ...+++.+|....+.||..|+|.++++..
T Consensus       209 t~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K~Lv~EMisqkm~Pnl~TfNalL~c~a  284 (625)
T KOG4422|consen  209 TVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGKKLVAEMISQKMTPNLFTFNALLSCAA  284 (625)
T ss_pred             hHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccHHHHHHHHHhhcCCchHhHHHHHHHHH
Confidence            578899999999999999999999888777666 8888888764332    23678899999899999999999999999


Q ss_pred             ccCChHH----HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH-HHHHHHHHh----cCCCCC----CHhhHHHHHH
Q 023133           80 MTDDCTQ----LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK-ALLIFDHIK----GLKCKP----DLITYNIVLD  146 (287)
Q Consensus        80 ~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~----~~~~~~----~~~~~~~l~~  146 (287)
                      +.|+++.    |.+++.+|.+.|+.|...+|..+|..+.+.++..+ |..++.++.    ...++|    |...|...+.
T Consensus       285 kfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~  364 (625)
T KOG4422|consen  285 KFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMS  364 (625)
T ss_pred             HhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHH
Confidence            9998765    45677788899999999999999999988888754 333333332    222222    3344566666


Q ss_pred             HHHhcCCHHHHHHHHHH
Q 023133          147 ILGRVGRVNDMLNEFAS  163 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~  163 (287)
                      .|.+..+.+-|..+-.-
T Consensus       365 Ic~~l~d~~LA~~v~~l  381 (625)
T KOG4422|consen  365 ICSSLRDLELAYQVHGL  381 (625)
T ss_pred             HHHHhhhHHHHHHHHHH
Confidence            66666666666554433

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

Probab=99.71  E-value=3.5e-14  Score=110.58  Aligned_cols=256  Identities=11%  Similarity=0.143  Sum_probs=192.0

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      .-...++|+|+.+|+++.+.++..-   ++|..++-.  ++.+..  +..+.+-.-.--+..+.|+..+.+-|+-.++.+
T Consensus       272 ~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv--~~~~sk--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHE  347 (559)
T KOG1155|consen  272 SYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYV--KNDKSK--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHE  347 (559)
T ss_pred             HhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHH--HhhhHH--HHHHHHHHHHhccCCccceeeehhHHHHHHhHH
Confidence            3345667777777777777665433   455555433  222111  111211111112344566777777788888999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      .|..+|+..++.+ |....+|+.+..-|....+...|.+-+++..+.. +.|-..|-.|.++|.-.+.+.-|+-+|++..
T Consensus       348 KAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~  425 (559)
T KOG1155|consen  348 KAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKAL  425 (559)
T ss_pred             HHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHH
Confidence            9999999999987 5677899999999999999999999999998875 5688899999999999999999999999998


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----C-CC
Q 023133          166 EAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ----Q-IR  240 (287)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~-~~  240 (287)
                      +.... |...|.+|..+|.+.++.++|+..|.+....| ..+...+..|...|-+.++..+|...|.+.++.    | +.
T Consensus       426 ~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~  503 (559)
T KOG1155|consen  426 ELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEID  503 (559)
T ss_pred             hcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccc
Confidence            86443 88999999999999999999999999999876 446688999999999999999999998887752    2 22


Q ss_pred             c-chHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          241 P-SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       241 ~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      | ......-|..-+.+.+++++|..+-.....-
T Consensus       504 ~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  504 DETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             hHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            3 2333344666677888888888776666444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.70  E-value=1.1e-13  Score=104.59  Aligned_cols=202  Identities=12%  Similarity=0.101  Sum_probs=137.5

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
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            4455556666777777777777777776654 4455666667777777777777777777766553 3344566666777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      +...|++++|...++........| ....+..+...+...|++++|...+.+..+.. +.+...+..+...+...|++++
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHH
Confidence            777777777777777776542211 33455666777777888888888887777653 3345567777777888888888


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      |...+++..+. .+.+...+..++..+...|+.++|..+.+.+....
T Consensus       188 A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       188 ARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            88888887765 24455666667777777888888888877776543

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.

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.69  E-value=4.3e-13  Score=116.40  Aligned_cols=260  Identities=12%  Similarity=0.067  Sum_probs=159.2

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQL   87 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   87 (287)
                      ..+.|+++.|+..|++..+.++..+ ..+ .++..+...|+.++|+..+++.... .+........+...+...|++++|
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHH
Confidence            4577777777777777777766543 333 6666677777777777777777611 122222333334566667777777


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      +++++++.+.. |.+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.++++.+.
T Consensus       122 iely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        122 LALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            77777777765 344566666677777777777777777777655  455444433333333344554566666666554


Q ss_pred             CCCCChhHHHHH--------------------------------------------------------------------
Q 023133          168 GVVPDFISYNTL--------------------------------------------------------------------  179 (287)
Q Consensus       168 ~~~~~~~~~~~l--------------------------------------------------------------------  179 (287)
                      ... +...+..+                                                                    
T Consensus       199 ~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l  277 (822)
T PRK14574        199 APT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNL  277 (822)
T ss_pred             CCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHH
Confidence            311 11111111                                                                    


Q ss_pred             ---------------------HHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          180 ---------------------LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       180 ---------------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                                           +-++...+++.++++.|+.+...+.+....+-..+.++|...+.+++|..++..+....
T Consensus       278 ~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~  357 (822)
T PRK14574        278 LTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSD  357 (822)
T ss_pred             HhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcc
Confidence                                 22344556666666666666655544334455667778888888888888888876432


Q ss_pred             -----CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          239 -----IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       239 -----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                           ..++......|..++..++++++|..+++++.+..|
T Consensus       358 ~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p  398 (822)
T PRK14574        358 GKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTP  398 (822)
T ss_pred             ccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCC
Confidence                 122333456777888888888888888888876545

>PRK12370 invasion protein regulator; Provisional

Probab=99.68  E-value=1.5e-13  Score=116.36  Aligned_cols=248  Identities=11%  Similarity=0.035  Sum_probs=151.5

Q ss_pred             ChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh---------cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133           14 NVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE---------TNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus        14 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      .+++|...|++..+.++.....|..+..++..         .+++++|...+++..+.. +-+...+..+...+...|++
T Consensus       276 ~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~  354 (553)
T PRK12370        276 SLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEY  354 (553)
T ss_pred             HHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCH
Confidence            35677777777777765544556555554432         234677777777777653 23556666666777777888


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL-ITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ++|...++++.+.+ |.+...+..+...+...|++++|...+++..+..  |+. ..+..++..+...|++++|...+++
T Consensus       355 ~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~~  431 (553)
T PRK12370        355 IVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGDE  431 (553)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHHH
Confidence            88888888877776 4556677777777778888888888888777663  332 2333344455667778888888777


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCc
Q 023133          164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ-QIRP  241 (287)
Q Consensus       164 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~  241 (287)
                      +.+...+-+...+..+..++...|+.++|...+.++...  .|+ ....+.+...|...|  ++|...++.+.+. ...+
T Consensus       432 ~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        432 LRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            765432213444566666777778888888887776544  333 233444555556666  4666666666543 1122


Q ss_pred             chHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          242 SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      ....+  +...+.-.|+.+.+..+ +++.+.
T Consensus       508 ~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        508 NNPGL--LPLVLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             cCchH--HHHHHHHHhhhHHHHHH-HHhhcc
Confidence            22222  33334445665555555 666544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.67  E-value=1e-12  Score=114.09  Aligned_cols=270  Identities=16%  Similarity=0.147  Sum_probs=155.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      ...|...|++++|+++|+++.+..+..+..+..++..+...++.++|++.++++...  .|+...+..++..+...++..
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHH
Confidence            457777899999999999998888777767777788888888888888888888764  455555544444444455665


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH---------------------------------------
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIF---------------------------------------  126 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~---------------------------------------  126 (287)
                      +|++.++++.+.. |.+...+..+..++.+.|-...|.++.                                       
T Consensus       187 ~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        187 DALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            6888888887765 344444444444444443332222221                                       


Q ss_pred             ---------HHHhc-CCCCCCHh-hH----HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH
Q 023133          127 ---------DHIKG-LKCKPDLI-TY----NIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL  191 (287)
Q Consensus       127 ---------~~~~~-~~~~~~~~-~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  191 (287)
                               +.+.. .+-.|... .|    -=.+-++...|+..++++.|+.|...+.+....+-..+..+|...+++++
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~k  345 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEK  345 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHH
Confidence                     22111 01112211 11    11234455666666666666666666544344455566666666666666


Q ss_pred             HHHHHHHHhhCC-----CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----------Cc--ch-HhHHHHHHH
Q 023133          192 CLIYFREMGESG-----IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI-----------RP--SI-YVYRSLIDN  252 (287)
Q Consensus       192 a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----------~~--~~-~~~~~li~~  252 (287)
                      |..+++.+....     ..++......|..+|...+++++|..+++++.+...           .|  |- ..+..++..
T Consensus       346 A~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~  425 (822)
T PRK14574        346 AAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQS  425 (822)
T ss_pred             HHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHH
Confidence            666666664321     122333345566666666666666666666655210           11  11 223334455


Q ss_pred             HHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          253 LKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      +...|+..+|.+.++++....|.++.
T Consensus       426 ~~~~gdl~~Ae~~le~l~~~aP~n~~  451 (822)
T PRK14574        426 LVALNDLPTAQKKLEDLSSTAPANQN  451 (822)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence            55666666666666666666665543

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

Probab=99.67  E-value=3.4e-14  Score=115.18  Aligned_cols=259  Identities=12%  Similarity=0.091  Sum_probs=200.7

Q ss_pred             CChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcC--CCCHHHHHHHHHHHhccCChHHHHHH
Q 023133           13 GNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSR--TLSSDCYTNFARAFIMTDDCTQLLIF   90 (287)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~   90 (287)
                      -+..+|+..|..++++......+...+..+|.+.+++++|.++|+.+.+...  .-+..+|...+--+   .+ +-++..
T Consensus       333 y~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHL---q~-~v~Ls~  408 (638)
T KOG1126|consen  333 YNCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHL---QD-EVALSY  408 (638)
T ss_pred             HHHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHH---Hh-hHHHHH
Confidence            3568899999996665543337788899999999999999999999976521  11345565544222   11 222333


Q ss_pred             H-HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 023133           91 I-EEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGV  169 (287)
Q Consensus        91 ~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  169 (287)
                      + +.+.+.. +..+.+|.++..+|.-.++.+.|++.|++..+.. +....+|+.+..-+.....+|.|...|+.......
T Consensus       409 Laq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~  486 (638)
T KOG1126|consen  409 LAQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP  486 (638)
T ss_pred             HHHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc
Confidence            3 4445554 6778999999999999999999999999999874 23778999998889999999999999999876532


Q ss_pred             CCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHH
Q 023133          170 VPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSL  249 (287)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  249 (287)
                      . +-.+|.-+.-.|.+.++++.|.-.|++..+.+ +-+.+....+...+-+.|+.++|+++++++...+ +.|+..--.-
T Consensus       487 r-hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~  563 (638)
T KOG1126|consen  487 R-HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHR  563 (638)
T ss_pred             h-hhHHHHhhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHH
Confidence            2 34556667788999999999999999999875 4466777888889999999999999999998653 3355555556


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          250 IDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      +..+...+++++|+..+++++...|+....-
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~  594 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVF  594 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHH
Confidence            7778889999999999999999999876543

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

Probab=99.66  E-value=1.6e-12  Score=97.07  Aligned_cols=263  Identities=12%  Similarity=0.107  Sum_probs=206.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      +|.+.|-+.|..|.|+++...+.++...+.    .+...|..-|...|-+|.|..+|..+.+.+ ..-......|+..|-
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ  152 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQ  152 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHH
Confidence            577889999999999999999877644433    356677888899999999999999998754 334567778999999


Q ss_pred             ccCChHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPES----IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN  155 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  155 (287)
                      ...+|++|+..-+++.+.+..+.    ...|.-+...+....+.+.|...+.+..+.+ +..+..--.+.+.....|+++
T Consensus       153 ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~  231 (389)
T COG2956         153 ATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQ  231 (389)
T ss_pred             HhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchH
Confidence            99999999999999988875443    2456777788888899999999999988764 334445556778889999999


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .|.+.++...+.+..--..+...|..+|.+.|+.++....+.++.+..  ++...-..+...-....-.+.|...+.+-.
T Consensus       232 ~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql  309 (389)
T COG2956         232 KAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQL  309 (389)
T ss_pred             HHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHH
Confidence            999999999998765556778889999999999999999999998873  444444455555555555677777666666


Q ss_pred             hCCCCcchHhHHHHHHHHHh---cCChHHHHHHHHHHhhc
Q 023133          236 QQQIRPSIYVYRSLIDNLKK---MGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       236 ~~~~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~~~~~  272 (287)
                      .+  .|+...+..+++....   -|...+.+..++.|...
T Consensus       310 ~r--~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         310 RR--KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             hh--CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            54  6999999999987653   35577778888888543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=4.4e-13  Score=108.97  Aligned_cols=221  Identities=13%  Similarity=0.037  Sum_probs=145.6

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH-------HHHHHHHHHHhc
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS-------DCYTNFARAFIM   80 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~   80 (287)
                      .+...|++++|...++++.+.++..+.++..+...|.+.|+++.|.+++..+.+.+..++.       .+|..++.....
T Consensus       162 l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~  241 (398)
T PRK10747        162 IQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMA  241 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            3444455555555555554444443344444555555555555555555555444322111       011122222222


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      ..+.+...++++.+.+. .+.++.....+...+...|+.++|.+++++..+.  +|+...  .++.+....++.+++.+.
T Consensus       242 ~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~  316 (398)
T PRK10747        242 DQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKV  316 (398)
T ss_pred             hcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHH
Confidence            23333333333333222 2345667777888999999999999999998874  455532  234444566999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      .+...+.... |...+..+...+.+.+++++|.+.|+...+.  .|+..++..+...+.+.|+.++|.+++++...
T Consensus       317 ~e~~lk~~P~-~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        317 LRQQIKQHGD-TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            9999887543 6677889999999999999999999999986  79999999999999999999999999998764

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.65  E-value=4.7e-13  Score=101.10  Aligned_cols=200  Identities=10%  Similarity=-0.001  Sum_probs=168.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            678889999999999999999999998753 3456778888899999999999999999998876 45677888899999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCK-PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      ...|++++|.+.+++..+.... .....+..+..++...|++++|...+.+..+.... +...+..+...+...|++++|
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQ-RPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-ChHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999998764222 23456777888899999999999999999876433 566788899999999999999


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ...+++..+. .+.+...+..+...+...|+.++|..+.+.+.+.
T Consensus       189 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            9999998876 2456677778888899999999999998887653

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.

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

Probab=99.64  E-value=1.1e-13  Score=103.50  Aligned_cols=237  Identities=13%  Similarity=0.045  Sum_probs=205.0

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 023133           37 NCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS  116 (287)
Q Consensus        37 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  116 (287)
                      +.+..+|.+.|-+.+|.+.++.-++.  .|-+.||..|.++|.+..++..|+.++.+-++. .|-++.....+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            56889999999999999999998875  677889999999999999999999999998876 367777777888889999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHH
Q 023133          117 RQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYF  196 (287)
Q Consensus       117 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  196 (287)
                      ++.++|.++|+...+.. +.+++...++...|.-.++++-|+.+++++.+.|+. +...|+.+.-+|.-.+++|-+...|
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            99999999999998764 457778888888999999999999999999999987 8899999999999999999999999


Q ss_pred             HHHhhCCCcCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          197 REMGESGIKPDL--LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       197 ~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      .+....-..|+.  ..|-.|.......||+..|.+.|+-....+ ..+...++.|.-.-.+.|++++|..++..+....|
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            998765444543  356667778888999999999999988763 44567889898888999999999999999999888


Q ss_pred             CCCCh
Q 023133          275 DLAGP  279 (287)
Q Consensus       275 ~~~~~  279 (287)
                      +-..+
T Consensus       461 ~m~E~  465 (478)
T KOG1129|consen  461 DMAEV  465 (478)
T ss_pred             ccccc
Confidence            76544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.63  E-value=9.7e-13  Score=101.96  Aligned_cols=235  Identities=14%  Similarity=0.254  Sum_probs=188.9

Q ss_pred             chhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           33 PNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        33 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      +.++..+|.++++....++|.+++++......+.+..+||.+|.+-+-..+    .+++.+|......||..++|+++++
T Consensus       207 ~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c  282 (625)
T KOG4422|consen  207 DETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSC  282 (625)
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHH
Confidence            368999999999999999999999999988889999999999877553322    6788999999999999999999999


Q ss_pred             HHhcCCHHHH----HHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHH-HHHHHHHHHHc----CCCC----ChhHHHHH
Q 023133          113 FAKSRQIEKA----LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVND-MLNEFASMKEA----GVVP----DFISYNTL  179 (287)
Q Consensus       113 ~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~----~~~~----~~~~~~~l  179 (287)
                      ..+.|+++.|    .+++.+|++.|+.|...+|..+|..+++.++..+ +..++.++...    .++|    |...|...
T Consensus       283 ~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~A  362 (625)
T KOG4422|consen  283 AAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSA  362 (625)
T ss_pred             HHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHH
Confidence            9999987754    5677899999999999999999999999888755 44455554432    2222    34567777


Q ss_pred             HHHHHhcCchHHHHHHHHHHhhC----CCcCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHH
Q 023133          180 LNNLRKIRRLDLCLIYFREMGES----GIKPDL---LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDN  252 (287)
Q Consensus       180 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  252 (287)
                      +..|.+..+.+-|.++..-+...    -+.|+.   .-|..+....++....+.....|+.|+-.-.-|+..+...++.+
T Consensus       363 M~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA  442 (625)
T KOG4422|consen  363 MSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRA  442 (625)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHH
Confidence            88888999999998877666432    123332   24667777888888999999999999987778888999999999


Q ss_pred             HHhcCChHHHHHHHHHHhh
Q 023133          253 LKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       253 ~~~~g~~~~a~~~~~~~~~  271 (287)
                      ....|.++-.-+++..+..
T Consensus       443 ~~v~~~~e~ipRiw~D~~~  461 (625)
T KOG4422|consen  443 LDVANRLEVIPRIWKDSKE  461 (625)
T ss_pred             HhhcCcchhHHHHHHHHHH
Confidence            8888888887777766643

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

Probab=99.62  E-value=9.7e-12  Score=104.42  Aligned_cols=269  Identities=14%  Similarity=0.163  Sum_probs=202.0

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      +.-.|++++|.+++.++.+.++..+..|..|...|-+.|+.+++...+--.-..+ +-|...|..+.....+.|++.+|.
T Consensus       149 lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~  227 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQAR  227 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHH
Confidence            3344999999999999999998888999999999999999999987765544332 346688888888889999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhH----HHHHHHHHhcCCHHHHHHHHHHH
Q 023133           89 IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITY----NIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      -.|.++++.. |++...+-.-+..|-+.|+...|...|.++.....+.|..-+    -..+..+...++-+.|.+.++..
T Consensus       228 ~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  228 YCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            9999999987 566666666778899999999999999999876422222222    23345566666667787777776


Q ss_pred             HHc-CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh------------------------------------------
Q 023133          165 KEA-GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE------------------------------------------  201 (287)
Q Consensus       165 ~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------------------------------------------  201 (287)
                      ... +-..+...++.++..+.+...++.|......+..                                          
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~ic  386 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMIC  386 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhh
Confidence            552 1223445566666666666666666666555443                                          


Q ss_pred             -------------------CCC--cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChH
Q 023133          202 -------------------SGI--KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVD  260 (287)
Q Consensus       202 -------------------~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  260 (287)
                                         ..+  .-+...|.-+..+|.+.|++.+|+.+|..+......-+...|..+..+|...|.++
T Consensus       387 L~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e  466 (895)
T KOG2076|consen  387 LVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYE  466 (895)
T ss_pred             hhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHH
Confidence                               110  11233455677889999999999999999987755556778999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCh
Q 023133          261 LAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~~  279 (287)
                      +|.+.|+++....|++.+.
T Consensus       467 ~A~e~y~kvl~~~p~~~D~  485 (895)
T KOG2076|consen  467 EAIEFYEKVLILAPDNLDA  485 (895)
T ss_pred             HHHHHHHHHHhcCCCchhh
Confidence            9999999999998887764

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

Probab=99.62  E-value=2.3e-12  Score=100.68  Aligned_cols=256  Identities=13%  Similarity=0.128  Sum_probs=191.3

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC--CCHHHHHHHHHHHhccCC
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRT--LSSDCYTNFARAFIMTDD   83 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~   83 (287)
                      .++....+.+++..-.+.....|.... -.-+....+.-...+++.|+.+|+++.+...-  -|.++|..++-.-....+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            444455566666666666666655443 23333344455667788888888887765211  134555554433222111


Q ss_pred             hHHHHHHHHH-HHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           84 CTQLLIFIEE-VVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        84 ~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                          +.++-+ ....+ +--+.|+..+.+-|.-.++-++|...|++..+.+ +.....|+.+..-|....+...|.+-++
T Consensus       315 ----Ls~LA~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYR  388 (559)
T KOG1155|consen  315 ----LSYLAQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYR  388 (559)
T ss_pred             ----HHHHHHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHH
Confidence                122211 11221 3345567778888888999999999999999886 4566789999999999999999999999


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      ...+-... |-..|-.|.++|.-.+.+.-|.-+|++..+.. +-|...|.+|..+|.+.++.++|++.|......| ..+
T Consensus       389 rAvdi~p~-DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte  465 (559)
T KOG1155|consen  389 RAVDINPR-DYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTE  465 (559)
T ss_pred             HHHhcCch-hHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccc
Confidence            99997654 88999999999999999999999999998874 5678899999999999999999999999999876 336


Q ss_pred             hHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          243 IYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ...+..+.+.|-+.++.++|...|++-.+
T Consensus       466 ~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  466 GSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             hHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            68899999999999999999999988765

>TIGR00540 hemY_coli hemY protein

Probab=99.61  E-value=1.1e-12  Score=107.06  Aligned_cols=228  Identities=9%  Similarity=-0.093  Sum_probs=152.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHH---hccC
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAF---IMTD   82 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~   82 (287)
                      ...+...|+++.|...++.+.+..+..+.++..+...+.+.|+++.|.+.+..+.+.+..++......-..++   ...+
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~  239 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEA  239 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            4445556777777777777777665555666677777777777777777777777665332221111111111   2222


Q ss_pred             ChHHHHHHHHHHHhcCC---CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh---HHHHHHHHHhcCCHHH
Q 023133           83 DCTQLLIFIEEVVQIAS---PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT---YNIVLDILGRVGRVND  156 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~  156 (287)
                      ..+...+.+..+.+...   +.+...+..+...+...|+.++|.+++++..+.  .||...   ...........++.+.
T Consensus       240 ~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~  317 (409)
T TIGR00540       240 MADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEK  317 (409)
T ss_pred             HHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHH
Confidence            22222233333333221   236778888889999999999999999999876  355442   1222223345678899


Q ss_pred             HHHHHHHHHHcCCCCCh--hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          157 MLNEFASMKEAGVVPDF--ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       157 a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      +.+.++...+.... |.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.+++++.
T Consensus       318 ~~~~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       318 LEKLIEKQAKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999888765322 34  5667889999999999999999996444444799999999999999999999999999986


Q ss_pred             Hh
Q 023133          235 KQ  236 (287)
Q Consensus       235 ~~  236 (287)
                      ..
T Consensus       397 l~  398 (409)
T TIGR00540       397 LG  398 (409)
T ss_pred             HH
Confidence            53

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.59  E-value=2.3e-12  Score=109.13  Aligned_cols=228  Identities=10%  Similarity=0.028  Sum_probs=170.0

Q ss_pred             hhHHHHHHHHhh-----cCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHh---------ccCChHHHHHHHHHHHhcC
Q 023133           34 NAYNCVLVASAE-----TNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFI---------MTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        34 ~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~~~   98 (287)
                      .+|...+++...     .+++++|...|++..+.  .|+ ...+..+..++.         ..+++++|...++++.+..
T Consensus       257 da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld  334 (553)
T PRK12370        257 DSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD  334 (553)
T ss_pred             HHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC
Confidence            566666665422     23467999999999875  443 445555555443         2345889999999999987


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133           99 SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus        99 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                       |.+...+..+...+...|++++|...|++..+.+ +.+...+..+..++...|++++|...+++..+.+.. +...+..
T Consensus       335 -P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~  411 (553)
T PRK12370        335 -HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGIT  411 (553)
T ss_pred             -CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHH
Confidence             6778889899999999999999999999998875 345667888899999999999999999999887543 2233334


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhc
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKM  256 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~  256 (287)
                      ++..+...|++++|...++++.+.. .| +...+..+..++...|+.++|...+.++...  .|+ ....+.+...+...
T Consensus       412 ~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~  488 (553)
T PRK12370        412 KLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQN  488 (553)
T ss_pred             HHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhcc
Confidence            4555667899999999999987653 34 4455777888899999999999999997754  344 33445555566777


Q ss_pred             CChHHHHHHHHHHhh
Q 023133          257 GKVDLAMTIFEEMNS  271 (287)
Q Consensus       257 g~~~~a~~~~~~~~~  271 (287)
                      |  +.|...++.+.+
T Consensus       489 g--~~a~~~l~~ll~  501 (553)
T PRK12370        489 S--ERALPTIREFLE  501 (553)
T ss_pred             H--HHHHHHHHHHHH
Confidence            7  477777777754

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

Probab=99.59  E-value=8.8e-12  Score=89.02  Aligned_cols=212  Identities=12%  Similarity=0.027  Sum_probs=181.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      +..-|.-.|...|+...|..-+++.++.. |.+..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|.....+|
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            34456678999999999999999999987 6778899999999999999999999999988774 346668888999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          150 RVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      ..|++++|...|+.......-+ -..+|..+.-+..+.|+++.|...|++..+.. +-...+...+.....+.|++-.|.
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHH
Confidence            9999999999999988763211 34688888888899999999999999998874 334457778889999999999999


Q ss_pred             HHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHhhh
Q 023133          229 RLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKRK  285 (287)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~  285 (287)
                      .+++.....+. ++..+....|..-.+.|+.+.+.++=.++.+.+|..+...+|...
T Consensus       194 ~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e~q~f~~~  249 (250)
T COG3063         194 LYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEEYQTFLAG  249 (250)
T ss_pred             HHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHhHhcc
Confidence            99999888764 888888889999999999999999999999999998888877653

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

Probab=99.55  E-value=7.1e-12  Score=98.14  Aligned_cols=268  Identities=13%  Similarity=0.134  Sum_probs=193.5

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHH-hh-cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVAS-AE-TNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~-~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      -|.++|+++.|++++.-+.+.+.... .+-+.|-..+ .+ -.++..|.+.-+...... ..+......-.......|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            47799999999999998877765443 3333333332 22 336777777766665432 22333333333444567899


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      +.|.+.+++.+...-.-+...|| +.-.+-..|++++|+..|-++... +..+......+...|-...++..|++++-+.
T Consensus       507 dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            99999999988766433334444 555677889999999998776432 1346667778888898999999999998776


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY  244 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  244 (287)
                      ... ++.|+..++.|...|-+.|+-..|++++-+--.- ++-+..+...|..-|....-+++++.+|++..-  +.|+..
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~  660 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQS  660 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHH
Confidence            554 4447788889999999999999998876553322 466788888888888888889999999988764  689999


Q ss_pred             hHHHHHHHH-HhcCChHHHHHHHHHHhhcCCCCCChhhH
Q 023133          245 VYRSLIDNL-KKMGKVDLAMTIFEEMNSSLSDLAGPKDF  282 (287)
Q Consensus       245 ~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  282 (287)
                      -|..++..| .+.|++..|+++|+.+.+.+|.+..--.|
T Consensus       661 kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkf  699 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKF  699 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHH
Confidence            998888765 46899999999999998888877654333

>PF13041 PPR_2: PPR repeat family

Probab=99.54  E-value=2.9e-14  Score=79.48  Aligned_cols=49  Identities=37%  Similarity=0.704  Sum_probs=25.9

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 023133          136 PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR  184 (287)
Q Consensus       136 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  184 (287)
                      ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4455555555555555555555555555555555555555555555544

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

Probab=99.54  E-value=2e-12  Score=96.95  Aligned_cols=230  Identities=14%  Similarity=0.072  Sum_probs=195.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      +.|...|.+.|-+.+|.+-|+...+..+.+ ++|..|-..|.+..++..|+.++.+-++. .+-+.....-+.+.+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~-dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHP-DTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCch-hHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHH
Confidence            457789999999999999999988776543 59999999999999999999999998864 3334444556778889999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      +.++|.++++...+.. +.++.....+...|.-.++++-|+..|+++.+.|+ -+...|+.+.-+|.-.++++-++.-|+
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            9999999999999886 67778888888889999999999999999999995 588889999999999999999999999


Q ss_pred             HHHHcCCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          163 SMKEAGVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       163 ~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +....--.|+  ...|..+....+..|++..|.+.|+-....+ .-+...++.|.-.-.+.|++++|..+++.....
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            9876544343  3467778888899999999999999988764 446678999998899999999999999988764

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

Probab=99.53  E-value=5e-11  Score=91.69  Aligned_cols=230  Identities=13%  Similarity=0.049  Sum_probs=179.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH-------HHHHHHH
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD-------CYTNFAR   76 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~   76 (287)
                      +........|+.+.|..-.+.+.+.++.++.......++|.+.|++.....++..+.+.+.--++.       +|..+++
T Consensus       158 trarlll~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~  237 (400)
T COG3071         158 TRARLLLNRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQ  237 (400)
T ss_pred             HHHHHHHhCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHH
Confidence            345566778888888888888888888777888888899999999999999999998887655543       5666676


Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHH
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVND  156 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (287)
                      -....+..+.-...|+...+. ...++..-.+++.-+.++|+.++|.++..+..+.+..|.    -...-.+.+.++.+.
T Consensus       238 q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~  312 (400)
T COG3071         238 QARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEP  312 (400)
T ss_pred             HHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchH
Confidence            666666666666677766443 245666777888899999999999999999888765555    222334567778777


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          157 MLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       157 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      -.+..+.-.+... -++..+.+|...|.+.+.|.+|...|+...+.  .|+..+|+.+.+++.+.|+..+|.++.++...
T Consensus       313 l~k~~e~~l~~h~-~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         313 LIKAAEKWLKQHP-EDPLLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHhCC-CChhHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            7777777654422 24578899999999999999999999987776  79999999999999999999999999998774


Q ss_pred             CCCCc
Q 023133          237 QQIRP  241 (287)
Q Consensus       237 ~~~~~  241 (287)
                      .-..|
T Consensus       390 ~~~~~  394 (400)
T COG3071         390 LTRQP  394 (400)
T ss_pred             HhcCC
Confidence            43333

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

Probab=99.52  E-value=1.2e-10  Score=97.97  Aligned_cols=279  Identities=13%  Similarity=0.143  Sum_probs=176.4

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..|...|-+.|+.+++...+-.....++.....|..+.....+.|+++.|.-.|.+.++.. +++...+-.-...|-+.
T Consensus       176 y~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~  254 (895)
T KOG2076|consen  176 YYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKT  254 (895)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHh
Confidence            55666777777777777766655555554444667777777777777777777777766653 33444444455566666


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHH----HHHHHHHhcCCHHHHHHHHHHHhcC-CCCCCHhhHHHHHHHHHhcCCHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVN----RIIFAFAKSRQIEKALLIFDHIKGL-KCKPDLITYNIVLDILGRVGRVND  156 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~  156 (287)
                      |+...|..-|.++.....+.|..-+.    ..+..+...++-+.|.+.++..... +-..+...++.++..+.+...++.
T Consensus       255 G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~  334 (895)
T KOG2076|consen  255 GDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDK  334 (895)
T ss_pred             ChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHH
Confidence            66666666666666554322222111    2233344444445555555444331 112233344445555555444444


Q ss_pred             HHHHHHHHH-------------------------------------------------------------HcC--CCCCh
Q 023133          157 MLNEFASMK-------------------------------------------------------------EAG--VVPDF  173 (287)
Q Consensus       157 a~~~~~~~~-------------------------------------------------------------~~~--~~~~~  173 (287)
                      |......+.                                                             +..  +.-+.
T Consensus       335 ~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~  414 (895)
T KOG2076|consen  335 ALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDV  414 (895)
T ss_pred             hhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhH
Confidence            444443333                                                             222  12234


Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHH
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      ..|.-+..++...|++.+|..++..+......-+...|-.+..+|...|.+++|.+.|+..+... +-+...--.|...+
T Consensus       415 dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~  493 (895)
T KOG2076|consen  415 DLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLY  493 (895)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHH
Confidence            55677788899999999999999999987555567789999999999999999999999999752 33455666677788


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCCCChhhH
Q 023133          254 KKMGKVDLAMTIFEEMNSSLSDLAGPKDF  282 (287)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  282 (287)
                      -+.|+.++|.+.++.+....+.......|
T Consensus       494 ~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  494 QQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            99999999999999987444333333333

>PF13041 PPR_2: PPR repeat family

Probab=99.52  E-value=4.9e-14  Score=78.55  Aligned_cols=49  Identities=43%  Similarity=0.876  Sum_probs=27.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHH
Q 023133          206 PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       206 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  254 (287)
                      ||..+|+.++++|++.|++++|.++|++|.+.|+.||..||+.+|++|+
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

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.52  E-value=4.2e-11  Score=97.83  Aligned_cols=237  Identities=14%  Similarity=0.142  Sum_probs=179.7

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHh-----c-CCCCHH-HHHHHHHHHhccCChHHHHHHHHHHHhc-----C--C
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVS-----S-RTLSSD-CYTNFARAFIMTDDCTQLLIFIEEVVQI-----A--S   99 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~   99 (287)
                      .+...+...|...|+++.|..++++.++.     | ..|... +.+.+...|...+++.+|..+|+++...     |  .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            67778999999999999999999998765     1 123333 3445778888999999999999988643     2  2


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC-----CC-CCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHc---CC
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL-----KC-KPDLI-TYNIVLDILGRVGRVNDMLNEFASMKEA---GV  169 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~  169 (287)
                      +.-..+++.|..+|.+.|++++|...+++..+.     |. .|.+. .++.+...+...+++++|..+++...+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            334567888889999999999998888766431     21 23333 3567788889999999999999886432   12


Q ss_pred             CCC----hhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CC--cC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-
Q 023133          170 VPD----FISYNTLLNNLRKIRRLDLCLIYFREMGES----GI--KP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQ-  237 (287)
Q Consensus       170 ~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-  237 (287)
                      .++    ..+++.+...|...|++++|.+++++++..    +.  .+ ....++.|...|.+.+++.+|.++|.+.... 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    367899999999999999999999988642    11  12 2346788889999999999999988876532 


Q ss_pred             ---CC-Ccc-hHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 023133          238 ---QI-RPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       238 ---~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (287)
                         |. .|+ ..+|..|+..|...|+++.|.++.+.+.
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence               21 233 4689999999999999999999998884

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.51  E-value=1.4e-10  Score=90.50  Aligned_cols=126  Identities=10%  Similarity=-0.080  Sum_probs=62.0

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      .|..+...+...|++++|...|++.++.. +.+...|+.+...+...|++++|...|++..+.. |.+..++..+..++.
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~  143 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIALY  143 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            35555555555555555555555555432 2234455555555555555555555555555543 233445555555555


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          115 KSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ..|++++|.+.|++..+.  .|+..........+...++.++|...|...
T Consensus       144 ~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~  191 (296)
T PRK11189        144 YGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQR  191 (296)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHH
Confidence            555555555555555543  232221111111223344555555555443

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

Probab=99.51  E-value=8e-11  Score=91.10  Aligned_cols=266  Identities=12%  Similarity=0.036  Sum_probs=187.9

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCC
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDD   83 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   83 (287)
                      ++...+...|+.++|+..|++....++..-.........+.+.|+.++...+...+.... +.....|..-+.......+
T Consensus       237 ~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~  315 (564)
T KOG1174|consen  237 ALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKK  315 (564)
T ss_pred             HHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhh
Confidence            455667777777777777777766665433233333334456677777666666665431 2233334333444456677


Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      +..|+.+-++.++.. +.+...+-.-..++...++.++|.-.|+...... +-+..+|.-|+.+|...|++.+|..+-+.
T Consensus       316 ~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~  393 (564)
T KOG1174|consen  316 FERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANW  393 (564)
T ss_pred             HHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHH
Confidence            888888888877765 4566666666677888899999999998887663 35778999999999999999998877666


Q ss_pred             HHHcCCCCChhHHHHHH-HHH-HhcCchHHHHHHHHHHhhCCCcCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          164 MKEAGVVPDFISYNTLL-NNL-RKIRRLDLCLIYFREMGESGIKPDL-LTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       164 ~~~~~~~~~~~~~~~l~-~~~-~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      ..+. +..+..+.+.+. ..+ -....-++|..+++.-...  .|+- ...+.+...+...|..+.++.++++...  ..
T Consensus       394 ~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~--~~  468 (564)
T KOG1174|consen  394 TIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI--IF  468 (564)
T ss_pred             HHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHHh--hc
Confidence            5443 223555555442 222 2223346788888876654  5553 4677888899999999999999999886  47


Q ss_pred             cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          241 PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      ||...++.|.+.+...+.+.+|++.|..+.+..|.+.
T Consensus       469 ~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~  505 (564)
T KOG1174|consen  469 PDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSK  505 (564)
T ss_pred             cccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccch
Confidence            9999999999999999999999999999998888654

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.50  E-value=6.7e-11  Score=92.35  Aligned_cols=220  Identities=13%  Similarity=0.043  Sum_probs=159.1

Q ss_pred             cCChhHHHHHHHHHHHhc-CCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 023133           46 TNDIDLSFQILKDLLVSS-RTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA  122 (287)
Q Consensus        46 ~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  122 (287)
                      .+..+.++.-+.+++... ..|+  ...|..+...+...|+.++|...|++..+.. |.+...|+.+...+...|++++|
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            345677788888887542 2222  3457778888999999999999999999986 56789999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          123 LLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       123 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                      ...|++..+.. +-+..+|..+..++...|++++|.+.|+...+..  |+..........+...++.++|...+.+....
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            99999998764 2346678888889999999999999999998764  43322222233345567899999999776543


Q ss_pred             CCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--Cc-chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          203 GIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ---QI--RP-SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       203 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      . .|+... ..+..  ...|+..++ +.+..+.+.   .+  .| ....|..+...+...|++++|...|+++....|
T Consensus       195 ~-~~~~~~-~~~~~--~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        195 L-DKEQWG-WNIVE--FYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             C-CccccH-HHHHH--HHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            2 333222 22332  334555444 344444421   11  11 235788899999999999999999999998876

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

Probab=99.50  E-value=1.6e-10  Score=92.75  Aligned_cols=272  Identities=12%  Similarity=0.051  Sum_probs=213.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      .+-+...+++.+..++++.+.+.++..+..+..-|.++.+.|+..+-.-+=.++.+. .|-.+.+|-++.--|.-.|+..
T Consensus       251 ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~s  329 (611)
T KOG1173|consen  251 ADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYS  329 (611)
T ss_pred             HHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcH
Confidence            345667889999999999999988877767777777888889888777777777664 3446778888887788889999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL-ITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      +|.+.|.+....+ +.=...|-.....|+-.|.-++|+..+....+.  -|.. ..+--+.--|.+.++.+.|.++|.+.
T Consensus       330 eARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A  406 (611)
T KOG1173|consen  330 EARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQA  406 (611)
T ss_pred             HHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHHHHHHH
Confidence            9999999887765 334567888999999999999999988776553  1221 12223444577889999999999998


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----C--CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES----G--IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..... .|+..++.+.-.....+.+.+|..+|+..+..    +  ...-..+++.|.++|.+.+.+++|+..+++.+.. 
T Consensus       407 ~ai~P-~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-  484 (611)
T KOG1173|consen  407 LAIAP-SDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-  484 (611)
T ss_pred             HhcCC-CcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-
Confidence            77533 36677788877777889999999999887621    1  1123457889999999999999999999999876 


Q ss_pred             CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          239 IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       239 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      .+.+..++.++.-.|...|+++.|.+.|.+.+...|++...+..+
T Consensus       485 ~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL  529 (611)
T KOG1173|consen  485 SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELL  529 (611)
T ss_pred             CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHH
Confidence            466889999999999999999999999999999999886555443

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

Probab=99.49  E-value=2.4e-11  Score=102.91  Aligned_cols=273  Identities=12%  Similarity=0.074  Sum_probs=182.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhc---CCCCc-------hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDK---NIFLP-------NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYT   72 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~---~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   72 (287)
                      |.+...+...|+++.|...|+.....   ...++       .+-..+....-..++++.|.+.|....... +-=...|.
T Consensus       456 NNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~yl  534 (1018)
T KOG2002|consen  456 NNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYL  534 (1018)
T ss_pred             HhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHH
Confidence            44555555666666666666555443   00011       123334444455556666666666665542 11122333


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC-CCCCHhhHHHHHHHHHh-
Q 023133           73 NFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK-CKPDLITYNIVLDILGR-  150 (287)
Q Consensus        73 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~-  150 (287)
                      .++......+...+|...++...... ..++.++..+...+.+...+..|.+-|....+.- ..+|..+.-.|...|.+ 
T Consensus       535 Rl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~  613 (1018)
T KOG2002|consen  535 RLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQA  613 (1018)
T ss_pred             HhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHH
Confidence            33322223456666777776666654 4556666667777788888888877666654431 12455555555554432 


Q ss_pred             -----------cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          151 -----------VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       151 -----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                                 .+..++|+.+|.+......+ |..+-+-+.-.++..|++.+|..+|.++.+... -...+|-.+.++|.
T Consensus       614 l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~  691 (1018)
T KOG2002|consen  614 LHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYV  691 (1018)
T ss_pred             hcccccChHHHHHHHHHHHHHHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHH
Confidence                       24568899999988887544 777778888889999999999999999988752 34457888999999


Q ss_pred             hcCCHHHHHHHHHHHHhC-CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          220 RTGNIEESLRLFNDMKQQ-QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      ..|++..|+++|+...+. .-..+..+.+.|..++.+.|.+.+|.+.+..+....|.++..
T Consensus       692 e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v  752 (1018)
T KOG2002|consen  692 EQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSV  752 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchH
Confidence            999999999999987754 445577889999999999999999999999999999988763

>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=99.48  E-value=1e-11  Score=95.65  Aligned_cols=262  Identities=14%  Similarity=0.091  Sum_probs=182.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      ++.+.-.|++..++.-.+ ....+.... .....+.+++...|+++.++   .+.... ..|.......+...+...++-
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccch
Confidence            445567899999997776 333333223 56778889999999877644   344333 366666666666655554555


Q ss_pred             HHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      +.+..-+++....... .+..+.......+...|++++|++++..-      .+.......+.+|.+.++++.|.+.++.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666555554433333 33333334445677789999999988653      4567777888999999999999999999


Q ss_pred             HHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 023133          164 MKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI  239 (287)
Q Consensus       164 ~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  239 (287)
                      |.+.+   +..+...+..++..    .+.+.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+..+.+ 
T Consensus       157 ~~~~~---eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-  231 (290)
T PF04733_consen  157 MQQID---EDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-  231 (290)
T ss_dssp             HHCCS---CCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--
T ss_pred             HHhcC---CcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-
Confidence            98753   33455556655544    34689999999998765 46788999999999999999999999999988754 


Q ss_pred             CcchHhHHHHHHHHHhcCCh-HHHHHHHHHHhhcCCCCCChhhHh
Q 023133          240 RPSIYVYRSLIDNLKKMGKV-DLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       240 ~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      +-+..+...++.+....|+. +.+.+++.++....|+.|-...+.
T Consensus       232 ~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~~~~~~  276 (290)
T PF04733_consen  232 PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPLVKDLA  276 (290)
T ss_dssp             CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChHHHHHH
Confidence            44677888888888888888 678899999999999877655544

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.

>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=99.47  E-value=9.9e-10  Score=90.86  Aligned_cols=261  Identities=13%  Similarity=0.109  Sum_probs=176.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHH-HHHHHHHhc----
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCY-TNFARAFIM----   80 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~----   80 (287)
                      ...+...|++++|++.++.-...-+............+.+.|+.++|..+|..++..+  |+...| ..+..+..-    
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            3556788999999999977544332222678888889999999999999999998874  454444 444444411    


Q ss_pred             -cCChHHHHHHHHHHHh----------------------------------cCCCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 023133           81 -TDDCTQLLIFIEEVVQ----------------------------------IASPESIIVVNRIIFAFAKSRQIEKALLI  125 (287)
Q Consensus        81 -~~~~~~a~~~~~~~~~----------------------------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  125 (287)
                       ..+.+...++++++.+                                  .|+   +.+|+.+-..|.......-..++
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~Kgv---PslF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGV---PSLFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCC---chHHHHHHHHHcChhHHHHHHHH
Confidence             1234555555555543                                  232   23455555555544444444455


Q ss_pred             HHHHhcC----C----------CCCCHh--hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCch
Q 023133          126 FDHIKGL----K----------CKPDLI--TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRL  189 (287)
Q Consensus       126 ~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  189 (287)
                      +......    +          -+|+..  ++.-+...|...|++++|++++++..+.... .+..|..-.+.+-+.|++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt-~~ely~~KarilKh~G~~  244 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPT-LVELYMTKARILKHAGDL  244 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHCCCH
Confidence            5444321    1          123433  4455677788899999999999998887432 367788888889999999


Q ss_pred             HHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHh--------HHHHHHHHHhcCChHH
Q 023133          190 DLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYV--------YRSLIDNLKKMGKVDL  261 (287)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--------~~~li~~~~~~g~~~~  261 (287)
                      .+|.+.++...+.+ .-|...-+-.+..+.+.|++++|.+++....+.+..|-...        ......+|.+.|++..
T Consensus       245 ~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~  323 (517)
T PF12569_consen  245 KEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGL  323 (517)
T ss_pred             HHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence            99999999988775 44666777778888899999999999998887654433222        1334567889999999


Q ss_pred             HHHHHHHHhhcC
Q 023133          262 AMTIFEEMNSSL  273 (287)
Q Consensus       262 a~~~~~~~~~~~  273 (287)
                      |++.|..+.+.+
T Consensus       324 ALk~~~~v~k~f  335 (517)
T PF12569_consen  324 ALKRFHAVLKHF  335 (517)
T ss_pred             HHHHHHHHHHHH
Confidence            988888775543

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 [], [].

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

Probab=99.46  E-value=1.5e-09  Score=88.91  Aligned_cols=270  Identities=6%  Similarity=0.021  Sum_probs=213.3

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      ||+.-.+.|.+.+.++-|..+|....+-.+.....|......--..|..+....+|++.... .+-....|.......-.
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~  596 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWK  596 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHh
Confidence            35556677788888888888888877766544477877777777788888888888888775 33345566666677778


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|+...|..++..+.+.. +.+..+|-.-+..-....+++.|..+|.+....  .|+...|.--+..---.++.++|.++
T Consensus       597 agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             cCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            899999999999998876 557888888888889999999999999888765  57777776666666678889999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      +++..+. .+.-...|..+.+.+-+.++.+.|.+.|..-.+. ++-....|-.|...--+.|.+-.|..++++..-.+ +
T Consensus       674 lEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-P  750 (913)
T KOG0495|consen  674 LEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-P  750 (913)
T ss_pred             HHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-C
Confidence            9888775 2223467788888888999999999988776554 24445577777777788899999999999988664 5


Q ss_pred             cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          241 PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      -+...|...|..=.+.|..+.|..+..++++..|...
T Consensus       751 k~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg  787 (913)
T KOG0495|consen  751 KNALLWLESIRMELRAGNKEQAELLMAKALQECPSSG  787 (913)
T ss_pred             CcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccc
Confidence            5788899999999999999999999999999888654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.45  E-value=5.9e-11  Score=96.98  Aligned_cols=233  Identities=13%  Similarity=0.145  Sum_probs=174.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhc-----CCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHh-----c-CCC-C
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDK-----NIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVS-----S-RTL-S   67 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~-~~~-~   67 (287)
                      ..|...|...|+++.|+.+++...+.     |...+   ...+.+...|...+++++|..+|+++...     | ..| -
T Consensus       203 ~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~v  282 (508)
T KOG1840|consen  203 RNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAV  282 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHH
Confidence            45888999999999999999887654     22222   45556788999999999999999998653     1 112 2


Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhc-----CC-CCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHhcC---CCCCC
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQI-----AS-PES-IIVVNRIIFAFAKSRQIEKALLIFDHIKGL---KCKPD  137 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~  137 (287)
                      ..+++.|..+|.+.|++++|...++...+.     +. .+. ...++.+...+...+++++|..++....+.   -+.++
T Consensus       283 a~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~  362 (508)
T KOG1840|consen  283 AATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGED  362 (508)
T ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcccc
Confidence            346777888999999999999998877543     11 122 245667788889999999999998766432   11222


Q ss_pred             ----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC--CC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhh----C
Q 023133          138 ----LITYNIVLDILGRVGRVNDMLNEFASMKEA----GV--VP-DFISYNTLLNNLRKIRRLDLCLIYFREMGE----S  202 (287)
Q Consensus       138 ----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~  202 (287)
                          ..+++.|...|...|++++|.+++++....    +-  .+ ....++.+...|.+.++..+|.++|.+...    .
T Consensus       363 ~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~  442 (508)
T KOG1840|consen  363 NVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLC  442 (508)
T ss_pred             chHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHh
Confidence                247899999999999999999999997543    11  11 235678888999999999999998887542    3


Q ss_pred             CC-cCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          203 GI-KPD-LLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       203 ~~-~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      |. .|+ ..+|..|...|...|+++.|.++.+.+.
T Consensus       443 g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  443 GPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             CCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            32 233 3579999999999999999999998886

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

Probab=99.43  E-value=3.8e-10  Score=80.85  Aligned_cols=200  Identities=12%  Similarity=-0.028  Sum_probs=155.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .+...|.-.|.+.|+...|..-+++.++.. +-+..++..+...|.+.|..+.|.+.|++..+.. +.+..+.|.....+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHH
Confidence            466677778888888888888888888763 3356678888888888888898988888888876 56778888888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCK-PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      +..|++++|...|++....-.- -...+|..+.-+..+.|+.+.|.+.|++..+.... ...+...+.....+.|++..|
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHhcccchHH
Confidence            8888999999888887764211 13447778888888889999999988888776543 445667778888888888888


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ..+++.....+. ++..+.-..|..-...|+-+.+-++=..+.+.
T Consensus       193 r~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         193 RLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            888888877764 78888777788888888888777766666653

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

Probab=99.42  E-value=7.6e-10  Score=87.52  Aligned_cols=264  Identities=13%  Similarity=0.074  Sum_probs=177.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCC
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDD   83 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~   83 (287)
                      ..+-|.++|++++|++.|+...+..+..+..|.....+|...|+|+++.+--...++.  .|+ .-.+..-.+++-..|+
T Consensus       121 ~GN~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~lg~  198 (606)
T KOG0547|consen  121 KGNKFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQLGK  198 (606)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHhhcc
Confidence            4566889999999999999999888765678899999999999999988776666542  333 2233333344444454


Q ss_pred             hHHHHH----------------------HHHHH--------Hh-cCC--CCcHHHHHHHHHH------------------
Q 023133           84 CTQLLI----------------------FIEEV--------VQ-IAS--PESIIVVNRIIFA------------------  112 (287)
Q Consensus        84 ~~~a~~----------------------~~~~~--------~~-~~~--~~~~~~~~~l~~~------------------  112 (287)
                      +++++.                      ++++.        .+ .+.  -|+....++....                  
T Consensus       199 ~~eal~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ksDa  278 (606)
T KOG0547|consen  199 FDEALFDVTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKSDA  278 (606)
T ss_pred             HHHHHHhhhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccchh
Confidence            444322                      11110        01 111  1222111111111                  


Q ss_pred             ---------------------------------------------------------HHhcCCHHHHHHHHHHHhcCCCC
Q 023133          113 ---------------------------------------------------------FAKSRQIEKALLIFDHIKGLKCK  135 (287)
Q Consensus       113 ---------------------------------------------------------~~~~~~~~~a~~~~~~~~~~~~~  135 (287)
                                                                               +.-.|+.-.|..-|+..+...  
T Consensus       279 ~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~I~l~--  356 (606)
T KOG0547|consen  279 ALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAAIKLD--  356 (606)
T ss_pred             hHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHHHhcC--
Confidence                                                                     112344444444444444432  


Q ss_pred             CCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHH
Q 023133          136 PDLI-TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTAL  214 (287)
Q Consensus       136 ~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  214 (287)
                      |... .|--+...|....+.++....|+...+.+.. ++.+|..-.+...-.+++++|..=|++.+... +.+...|-.+
T Consensus       357 ~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl  434 (606)
T KOG0547|consen  357 PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQL  434 (606)
T ss_pred             cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHH
Confidence            2222 2555666777888888888888888776544 56677777777777788888888888887763 3355667777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          215 IDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       215 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .-+..+.++++++...|++.+++ ++.-+..|+.....+...++++.|.+.|+......|.
T Consensus       435 ~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  435 CCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            77777889999999999999886 6777889999999999999999999999999888877

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

Probab=99.42  E-value=1.9e-09  Score=91.79  Aligned_cols=274  Identities=11%  Similarity=0.092  Sum_probs=156.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHH--HHHHHHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDC--YTNFARA   77 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~   77 (287)
                      +.|...|.-.|+++.+..+...+.......+   ++|..+.++|-..|+++.|...|.+..+.  .++.++  +.-+...
T Consensus       274 ~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm  351 (1018)
T KOG2002|consen  274 NHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQM  351 (1018)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHH
Confidence            3455555666666666666666554432222   45666666666667777776666665543  233322  2335566


Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC----CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR----QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                      +...|+++.+...|+.+.+.. |.+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+...+.... 
T Consensus       352 ~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d-  428 (1018)
T KOG2002|consen  352 YIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTD-  428 (1018)
T ss_pred             HHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcC-
Confidence            666666666666666666653 445555555665555553    3455555555554432 334555555555544333 


Q ss_pred             HHHHHHHHHHH----HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC---CCcCCH------HHHHHHHHHHHh
Q 023133          154 VNDMLNEFASM----KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES---GIKPDL------LTYTALIDSFGR  220 (287)
Q Consensus       154 ~~~a~~~~~~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~  220 (287)
                      +..++..|...    ...+..+.....|.+.......|++.+|...|......   ...++.      .+--.+..++-.
T Consensus       429 ~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~  508 (1018)
T KOG2002|consen  429 PWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEE  508 (1018)
T ss_pred             hHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHh
Confidence            33335555443    23344456677777777777777777777777776543   112222      222234555566


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          221 TGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      .++++.|.+.|..+.+.  .|. +..|..+.......+...+|...++.+......+|...+|.
T Consensus       509 l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~  570 (1018)
T KOG2002|consen  509 LHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLL  570 (1018)
T ss_pred             hhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHH
Confidence            67777777777777764  233 23344443333345677788888888877777777666554

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

Probab=99.40  E-value=4.1e-11  Score=100.66  Aligned_cols=236  Identities=15%  Similarity=0.186  Sum_probs=141.9

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      ||..+|.-||..|+.+.|- +|.-|..++.... ..++.++.+..+.++.+.+.           .|...+|..|..+|.
T Consensus        27 tyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~Ll~ayr   94 (1088)
T KOG4318|consen   27 TYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNLLKAYR   94 (1088)
T ss_pred             hHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHHHHHHH
Confidence            4666666677777766666 6666665555444 56666666666666655443           566778888888888


Q ss_pred             ccCChHHHHHHHHH-HH-------hcCCC-CcHH-------------HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC
Q 023133           80 MTDDCTQLLIFIEE-VV-------QIASP-ESII-------------VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD  137 (287)
Q Consensus        80 ~~~~~~~a~~~~~~-~~-------~~~~~-~~~~-------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  137 (287)
                      ..||... .+..++ +.       ..|+. +...             --.+.+....-.|-++.+.+++..+....... 
T Consensus        95 ~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~~~-  172 (1088)
T KOG4318|consen   95 IHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAWNA-  172 (1088)
T ss_pred             hccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccccc-
Confidence            8777654 222222 21       12211 0000             01122233334455555555554443221000 


Q ss_pred             HhhHHHHHHHHHhc-CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHH
Q 023133          138 LITYNIVLDILGRV-GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALID  216 (287)
Q Consensus       138 ~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  216 (287)
                        .+...++-+... ..+++-..+-..+.+   .|++.+|..++..-...|+.+.|..++.+|.+.|++.+..-|..|+-
T Consensus       173 --p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~  247 (1088)
T KOG4318|consen  173 --PFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLL  247 (1088)
T ss_pred             --hHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhh
Confidence              111112222222 223333322222222   47888899999988889999999999999999998888887777775


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCC
Q 023133          217 SFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGK  258 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  258 (287)
                      +   .++..-+..++.-|.+.|+.|+..|+...+-.+...|.
T Consensus       248 g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  248 G---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             c---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            5   78888888888888888999999888888777766444

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

Probab=99.40  E-value=2.4e-09  Score=87.74  Aligned_cols=261  Identities=11%  Similarity=0.067  Sum_probs=157.6

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHH
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQL   87 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   87 (287)
                      .+-..|++..|..++...-+.++.+...|...+..-..+..++.|..+|.+...  ..|+...|..-+..---.++.++|
T Consensus       593 e~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA  670 (913)
T KOG0495|consen  593 EKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEA  670 (913)
T ss_pred             HHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHH
Confidence            344457777777777776666655446777777777777777777777766654  345556665555555556677777


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      .+++++.++.- +.-...|-.+.+.+-+.++++.|...|..-.+.- +.....|-.|...=-+.|.+-+|..+++..+..
T Consensus       671 ~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~c-P~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  671 LRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKC-PNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccC-CCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            77777666652 3444566666666667777777776666544431 334445666666666677777777777777766


Q ss_pred             CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CC-------------------------cCCHHHHHHHHHHH
Q 023133          168 GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES----GI-------------------------KPDLLTYTALIDSF  218 (287)
Q Consensus       168 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-------------------------~~~~~~~~~l~~~~  218 (287)
                      +.+ +...|...|+.-.+.|+.+.|..++.+.++.    |+                         .-|......+...+
T Consensus       749 NPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lf  827 (913)
T KOG0495|consen  749 NPK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLF  827 (913)
T ss_pred             CCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHH
Confidence            554 6677777777777778777777776665542    10                         11222333344444


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          219 GRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       219 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      -...++++|.+.|.+.++.+ +-+..+|..+..-+.++|.-++-.++++......|
T Consensus       828 w~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP  882 (913)
T KOG0495|consen  828 WSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEP  882 (913)
T ss_pred             HHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCC
Confidence            45555666666666655532 22234555555555566655555555555554444

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

Probab=99.39  E-value=4.3e-10  Score=88.87  Aligned_cols=225  Identities=16%  Similarity=0.115  Sum_probs=174.3

Q ss_pred             HHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           42 ASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      .+.-.|+.-.|..-|+..+.....++. .|..+...|....+.++..+.|.+..+.+ +.++.+|..-...+.-.+++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            345568888899999998876543333 37777888999999999999999999887 5677788888888888899999


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      |..=|++..... +-+...|-.+..+..+.++++++...|++.++. ++-.+..|+.....+...++++.|.+.|+...+
T Consensus       413 A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            999999998764 335567777777888999999999999999876 344678899999999999999999999998876


Q ss_pred             CCCc-----CCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          202 SGIK-----PDLLT--YTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       202 ~~~~-----~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      ..-.     .+...  -..++.. .-.+++..|..++++..+.+ +-....|..|...-.+.|+.++|+++|++....
T Consensus       491 LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~D-pkce~A~~tlaq~~lQ~~~i~eAielFEksa~l  566 (606)
T KOG0547|consen  491 LEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELD-PKCEQAYETLAQFELQRGKIDEAIELFEKSAQL  566 (606)
T ss_pred             hccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccC-chHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            4211     11211  1122222 23489999999999999853 234567889999999999999999999987443

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

Probab=99.36  E-value=6e-09  Score=84.08  Aligned_cols=261  Identities=10%  Similarity=0.041  Sum_probs=148.1

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh----cCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccC
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE----TNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTD   82 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~   82 (287)
                      .+...|++++|.+.+++..+..+....++.. ...+..    .+..+.+.+.+..  .....|+ ......+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcC
Confidence            4456778888888888877765543333332 222222    3344444444433  1112232 233344556777888


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCH--hhHHHHHHHHHhcCCHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC-KPDL--ITYNIVLDILGRVGRVNDMLN  159 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~  159 (287)
                      ++++|...+++..+.. +.+...+..+...+...|++++|...+++...... .|+.  ..|..+...+...|++++|..
T Consensus       129 ~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         129 QYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            8888888888888876 55667778888888888888888888887765421 1222  234567777888888888888


Q ss_pred             HHHHHHHcCC-CCChhHH-H--HHHHHHHhcCchHHHHHH--HHHH-hhCC-CcCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133          160 EFASMKEAGV-VPDFISY-N--TLLNNLRKIRRLDLCLIY--FREM-GESG-IKPDLLTYTALIDSFGRTGNIEESLRLF  231 (287)
Q Consensus       160 ~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~--~~~~-~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~  231 (287)
                      ++++...... .+..... +  .++.-+...|..+.+.+.  +... .... .............++...|+.+.|..++
T Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L  287 (355)
T cd05804         208 IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLL  287 (355)
T ss_pred             HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHH
Confidence            8888754322 1111111 1  222233333433333332  1111 1110 0111122224566677888889898888


Q ss_pred             HHHHhCCCC------c--chHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          232 NDMKQQQIR------P--SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       232 ~~~~~~~~~------~--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      +.+......      .  .........-++...|++++|.+.+......
T Consensus       288 ~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         288 AALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            887653211      0  1122222233456788999998888887554

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.

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

Probab=99.35  E-value=1.4e-09  Score=85.65  Aligned_cols=239  Identities=12%  Similarity=0.146  Sum_probs=179.6

Q ss_pred             CChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHH
Q 023133           13 GNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIE   92 (287)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   92 (287)
                      .++.+|...-+.....+...+.+...-.......|++++|.+.|++.+.....-....|+ +.-.+-..|++++|+..|-
T Consensus       470 k~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~  548 (840)
T KOG2003|consen  470 KDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFL  548 (840)
T ss_pred             cchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHH
Confidence            356666666665555554443333333444556799999999999988654332333333 2334567899999999998


Q ss_pred             HHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 023133           93 EVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD  172 (287)
Q Consensus        93 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  172 (287)
                      ++...- ..+..+..-+...|-...+...|++++.+.... ++.|.....-|...|-+.|+-..|...+-+--.. ++.+
T Consensus       549 klh~il-~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~n  625 (840)
T KOG2003|consen  549 KLHAIL-LNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCN  625 (840)
T ss_pred             HHHHHH-HhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcc
Confidence            775542 456777778889999999999999999887654 3557778889999999999999998876543332 4457


Q ss_pred             hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHH-HhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          173 FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSF-GRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       173 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      ..+...|...|....-+++++.+|++..-  +.|+..-|..++..| .+.|++.+|.++++...+. ++.|......|+.
T Consensus       626 ie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk-fpedldclkflvr  702 (840)
T KOG2003|consen  626 IETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK-FPEDLDCLKFLVR  702 (840)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh-CccchHHHHHHHH
Confidence            78888889999999999999999998754  489999998887655 5789999999999998875 7888999999999


Q ss_pred             HHHhcCC
Q 023133          252 NLKKMGK  258 (287)
Q Consensus       252 ~~~~~g~  258 (287)
                      .+...|-
T Consensus       703 i~~dlgl  709 (840)
T KOG2003|consen  703 IAGDLGL  709 (840)
T ss_pred             Hhccccc
Confidence            8887774

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

Probab=99.34  E-value=2.6e-08  Score=80.38  Aligned_cols=268  Identities=11%  Similarity=0.038  Sum_probs=170.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHH---HHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTN---FAR   76 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~   76 (287)
                      ..+...+...|+.+.+.+.+...........   .........+...|++++|.+.+++..+.. +.+...+..   ...
T Consensus        10 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~   88 (355)
T cd05804          10 AAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFG   88 (355)
T ss_pred             HHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHH
Confidence            4455666777888888877777665544332   334444556778899999999999998763 333434432   111


Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHH
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVND  156 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (287)
                      .....+....+.+.++.. ....+........+...+...|++++|...+++..+.. +.+...+..+..++...|++++
T Consensus        89 ~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~e  166 (355)
T cd05804          89 LGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKE  166 (355)
T ss_pred             hcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHH
Confidence            122345555555555542 12223344555667778899999999999999998875 4456677888899999999999


Q ss_pred             HHHHHHHHHHcCC-CCCh--hHHHHHHHHHHhcCchHHHHHHHHHHhhCCC-cCCHHHH-H--HHHHHHHhcCCHHHHHH
Q 023133          157 MLNEFASMKEAGV-VPDF--ISYNTLLNNLRKIRRLDLCLIYFREMGESGI-KPDLLTY-T--ALIDSFGRTGNIEESLR  229 (287)
Q Consensus       157 a~~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~-~--~l~~~~~~~g~~~~a~~  229 (287)
                      |...+++..+... .|+.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|....+.+
T Consensus       167 A~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~  246 (355)
T cd05804         167 GIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDR  246 (355)
T ss_pred             HHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHH
Confidence            9999999876532 2232  3455678889999999999999999864421 1222211 1  33334444554333333


Q ss_pred             H--HHHHHhCCCC--cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          230 L--FNDMKQQQIR--PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       230 ~--~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      +  +.........  ...........++...|+.++|...++.+....
T Consensus       247 w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         247 WEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            3  2211111111  111222356667888999999999999986643

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.

>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=2e-08  Score=81.00  Aligned_cols=244  Identities=12%  Similarity=0.104  Sum_probs=187.2

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      |..+...|+..+-..+=.++.+..|..+.+|.++..-|...|+..+|.+.|.+....... =...|......++-.+..+
T Consensus       285 ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~-fgpaWl~fghsfa~e~Ehd  363 (611)
T KOG1173|consen  285 IACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPT-FGPAWLAFGHSFAGEGEHD  363 (611)
T ss_pred             HHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCcc-ccHHHHHHhHHhhhcchHH
Confidence            456677787777777777787777766689999999999999999999999887643211 2456777888899999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      +|+..+..+-+.-. -....+--+.--|.+.+..+.|.+.|.+..... +.|....+-+.-.....+.+.+|..+|+...
T Consensus       364 QAmaaY~tAarl~~-G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l  441 (611)
T KOG1173|consen  364 QAMAAYFTAARLMP-GCHLPSLYLGMEYMRTNNLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKAL  441 (611)
T ss_pred             HHHHHHHHHHHhcc-CCcchHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHH
Confidence            99999887765431 111222234456888899999999999887653 4567778888877788899999999998875


Q ss_pred             Hc--CCCC----ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 023133          166 EA--GVVP----DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI  239 (287)
Q Consensus       166 ~~--~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  239 (287)
                      ..  .+.+    -..+++.|..+|.+.+..++|+..+++.+... +-+..++..+.-.|...|+++.|.+.|.+..-  +
T Consensus       442 ~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l  518 (611)
T KOG1173|consen  442 EVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--L  518 (611)
T ss_pred             HHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--c
Confidence            21  1111    33568889999999999999999999988764 66888999999999999999999999998885  5


Q ss_pred             CcchHhHHHHHHHHHh
Q 023133          240 RPSIYVYRSLIDNLKK  255 (287)
Q Consensus       240 ~~~~~~~~~li~~~~~  255 (287)
                      .|+-.+...++..+..
T Consensus       519 ~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  519 KPDNIFISELLKLAIE  534 (611)
T ss_pred             CCccHHHHHHHHHHHH
Confidence            7887777777765543

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

Probab=99.23  E-value=1.2e-09  Score=92.15  Aligned_cols=243  Identities=11%  Similarity=0.088  Sum_probs=166.7

Q ss_pred             HHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcC
Q 023133           20 RLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        20 ~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   98 (287)
                      .++-.+...|+.|+ .+|..+|.-|+..|+.+.|- +|.-|.-...+.+...++.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            35667888899999 89999999999999999998 9999988878888889999999999888877655          


Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHH---HHHHHHHHh----cCCCCCCHhhH--------------HHHHHHHHhcCCHHHH
Q 023133           99 SPESIIVVNRIIFAFAKSRQIEK---ALLIFDHIK----GLKCKPDLITY--------------NIVLDILGRVGRVNDM  157 (287)
Q Consensus        99 ~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~----~~~~~~~~~~~--------------~~l~~~~~~~~~~~~a  157 (287)
                       .|...+|..|..+|...||+..   +++-+..+.    ..|+......+              ...+....-.|.|+.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             5788999999999999998754   333222221    22221111111              1222333344555555


Q ss_pred             HHHHHHHHHcC-CCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          158 LNEFASMKEAG-VVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       158 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ++++..+.-.. ..|.    ..+++-+....  .-..++........-.|+..+|..++++-...|+.+.|..++.+|.+
T Consensus       159 lkll~~~Pvsa~~~p~----~vfLrqnv~~n--tpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke  232 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPF----QVFLRQNVVDN--TPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE  232 (1088)
T ss_pred             HHHHhhCCcccccchH----HHHHHHhccCC--chHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH
Confidence            55554443221 1111    11244443332  33444444433321168999999999999999999999999999999


Q ss_pred             CCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh--cCCCCCChhhHh
Q 023133          237 QQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS--SLSDLAGPKDFK  283 (287)
Q Consensus       237 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~~~~  283 (287)
                      .|++.+..-|..|+-+   .++...+..+++-|..  ..|+..+...|.
T Consensus       233 ~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  233 KGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             cCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            9999999888888866   7777777888877744  356655555554

>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=99.20  E-value=4.8e-08  Score=81.05  Aligned_cols=229  Identities=11%  Similarity=0.128  Sum_probs=147.4

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-
Q 023133           38 CVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS-  116 (287)
Q Consensus        38 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  116 (287)
                      -....+...|++++|++.++.-... +.............+.+.|+.++|..++..+++.+ |.+..-|..+..+..-. 
T Consensus         9 Y~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen    9 YKNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhc
Confidence            3445667899999999999875543 33334455667788999999999999999999997 46666666666665222 


Q ss_pred             ----CCHHHHHHHHHHHhcCCCCCCH---------------------------------hhHHHHHHHHHhcCCHHHHHH
Q 023133          117 ----RQIEKALLIFDHIKGLKCKPDL---------------------------------ITYNIVLDILGRVGRVNDMLN  159 (287)
Q Consensus       117 ----~~~~~a~~~~~~~~~~~~~~~~---------------------------------~~~~~l~~~~~~~~~~~~a~~  159 (287)
                          .+.+...++++++...-  |..                                 .+|+.|-..|....+..-...
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHH
Confidence                24667777777775431  111                                 122333333333333333334


Q ss_pred             HHHHHHHc----C----------CCCChh--HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC-HHHHHHHHHHHHhcC
Q 023133          160 EFASMKEA----G----------VVPDFI--SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD-LLTYTALIDSFGRTG  222 (287)
Q Consensus       160 ~~~~~~~~----~----------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  222 (287)
                      ++......    +          -.|+..  ++..+...|...|+.++|.+++++.++.  .|+ +..|..-...+-..|
T Consensus       165 l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G  242 (517)
T PF12569_consen  165 LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAG  242 (517)
T ss_pred             HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCC
Confidence            44443221    1          123332  3345566677788888888888877776  454 456777777788888


Q ss_pred             CHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          223 NIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       223 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      ++.+|.+.++...+.+ .-|...-+-.+..+.++|++++|.+++....+..
T Consensus       243 ~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  243 DLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             CHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            8888888888877653 3355566666677778888888888777774443

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 [], [].

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.20  E-value=1.2e-08  Score=77.36  Aligned_cols=187  Identities=13%  Similarity=0.106  Sum_probs=119.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh----
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESI---IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI----  139 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  139 (287)
                      ....+..+...+...|+++.|...++++.+.. +.+.   .++..+..++.+.|++++|...++++.+..  |+..    
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~  108 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDADY  108 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchHH
Confidence            45566667777777888888888888777654 2222   356667777788888888888888776652  3221    


Q ss_pred             hHHHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHH
Q 023133          140 TYNIVLDILGRV--------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTY  211 (287)
Q Consensus       140 ~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  211 (287)
                      ++..+..++...        |++++|.+.|+.+...... +...+..+... ..   ...      ...        ...
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~-~~---~~~------~~~--------~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRM-DY---LRN------RLA--------GKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHH-HH---HHH------HHH--------HHH
Confidence            344444455443        5677777777777665322 11222211111 00   000      000        011


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          212 TALIDSFGRTGNIEESLRLFNDMKQQQ--IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       212 ~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ..+...+.+.|++++|...++...+..  -+.....+..+..++...|++++|..+++.+...+|+
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~~  235 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYPD  235 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            245667889999999999999998752  1223567889999999999999999999999887764

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=99.19  E-value=1.7e-07  Score=73.52  Aligned_cols=233  Identities=15%  Similarity=0.105  Sum_probs=156.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHhccC-ChHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTL-SSDCYTNFARAFIMTD-DCTQLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      ++..+-..+...+..++|+.+..++++.  .| +..+|+....++...+ ++++++..++++.+.. +.+..+|+.....
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            3444555566677888888888888865  33 3345555555555666 5788888888888776 4556677766656


Q ss_pred             HHhcCCH--HHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc---C
Q 023133          113 FAKSRQI--EKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI---R  187 (287)
Q Consensus       113 ~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~  187 (287)
                      +.+.|+.  +++...++++.+.. +.+..+|+...-++...|+++++++.++++.+.++. |..+|+.....+.+.   |
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-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccc
Confidence            6666653  66778887777664 456778888888888888899999999988887665 566676665555444   2


Q ss_pred             ch----HHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcC--
Q 023133          188 RL----DLCLIYFREMGESGIKPDLLTYTALIDSFGRT----GNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMG--  257 (287)
Q Consensus       188 ~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--  257 (287)
                      ..    ++..++..+++... +-|...|+.+...+...    +...+|.+++.+..+.+ ..+......|++.|+...  
T Consensus       194 ~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~  271 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQP  271 (320)
T ss_pred             cccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhcc
Confidence            22    45666666666553 44566777777777663    34466888888876643 345667778888887532  


Q ss_pred             ----------------ChHHHHHHHHHHhhcCC
Q 023133          258 ----------------KVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       258 ----------------~~~~a~~~~~~~~~~~~  274 (287)
                                      ..++|.++++.+.+..|
T Consensus       272 ~~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~d~  304 (320)
T PLN02789        272 TAEFRDTVDTLAEELSDSTLAQAVCSELEVADP  304 (320)
T ss_pred             chhhhhhhhccccccccHHHHHHHHHHHHhhCc
Confidence                            24678888888854433

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

Probab=99.17  E-value=3.3e-07  Score=72.85  Aligned_cols=261  Identities=10%  Similarity=0.122  Sum_probs=165.7

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      ..|++..|.++|++-.+-.  |+ .+|.+.+..-.+.+..+.|..+|++..-  +.|+..+|....+-=.+.|....+.+
T Consensus       153 ~LgNi~gaRqiferW~~w~--P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  153 MLGNIAGARQIFERWMEWE--PDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HhcccHHHHHHHHHHHcCC--CcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            4567777777777765543  55 6777777777777777777777777654  34555555554444444444444444


Q ss_pred             HHHHHHhc------------------------------------------------------------------------
Q 023133           90 FIEEVVQI------------------------------------------------------------------------   97 (287)
Q Consensus        90 ~~~~~~~~------------------------------------------------------------------------   97 (287)
                      +++.+.+.                                                                        
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            44333210                                                                        


Q ss_pred             --------CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh--hHHHHH--------HHHHhcCCHHHHHH
Q 023133           98 --------ASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI--TYNIVL--------DILGRVGRVNDMLN  159 (287)
Q Consensus        98 --------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~--------~~~~~~~~~~~a~~  159 (287)
                              ..+.|-.+|--.++.-...|+.+...++|++....- +|-..  .|..-|        -.=....+++.+.+
T Consensus       309 ~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~  387 (677)
T KOG1915|consen  309 FQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ  387 (677)
T ss_pred             hHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence                    004455566666777777788888888888877542 34221  121111        11123445555555


Q ss_pred             HHHHHHH------------------------------------cCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          160 EFASMKE------------------------------------AGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       160 ~~~~~~~------------------------------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      +|+...+                                    -|..|-..+|...|..-.+.+++|.+..++++.++.+
T Consensus       388 vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  388 VYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            5544332                                    2445666677777777777888888888888888875


Q ss_pred             CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          204 IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ-IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       204 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                       +.|..+|......-...|+.+.|..+|.-.+.+. +......|.+.|+-=...|.++.|..+|+++++..+..+
T Consensus       468 -Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~k  541 (677)
T KOG1915|consen  468 -PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVK  541 (677)
T ss_pred             -hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccch
Confidence             5566777777777778888888888888887652 223345677777777788899999999988877655443

>PLN02789 farnesyltranstransferase

Probab=99.16  E-value=1.7e-07  Score=73.50  Aligned_cols=228  Identities=8%  Similarity=0.017  Sum_probs=168.9

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC-ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN-DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +.+-..+...++.++|+.+.+.+...++....+|+....++...| ++++++..++++.+.+.+ +..+|+...-.+.+.
T Consensus        41 ~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l  119 (320)
T PLN02789         41 DYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKL  119 (320)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHc
Confidence            344556677889999999999999988766578888777777777 689999999999987533 445666555455555


Q ss_pred             CC--hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc---CC---
Q 023133           82 DD--CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV---GR---  153 (287)
Q Consensus        82 ~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~---  153 (287)
                      ++  .+.+..+++++++.. +.+..+|+....++...|+++++++.++++.+.+ +.+...|+....++.+.   |.   
T Consensus       120 ~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~  197 (320)
T PLN02789        120 GPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEA  197 (320)
T ss_pred             CchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccc
Confidence            55  367888999999887 6788999999999999999999999999999876 34666777766655544   22   


Q ss_pred             -HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc----CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC------
Q 023133          154 -VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI----RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG------  222 (287)
Q Consensus       154 -~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g------  222 (287)
                       .++.+.+..++...... |...|+.+...+...    +...+|.+.+.+..+.+ ..+......|++.|+...      
T Consensus       198 ~~e~el~y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~~~~~~~~  275 (320)
T PLN02789        198 MRDSELKYTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEGLQPTAEF  275 (320)
T ss_pred             cHHHHHHHHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhhhccchhh
Confidence             24677777777766543 778888888877763    34466888888877654 446678888999888632      


Q ss_pred             ------------CHHHHHHHHHHHH
Q 023133          223 ------------NIEESLRLFNDMK  235 (287)
Q Consensus       223 ------------~~~~a~~~~~~~~  235 (287)
                                  ..++|.++++.+.
T Consensus       276 ~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        276 RDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hhhhhccccccccHHHHHHHHHHHH
Confidence                        2356777777773

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.16  E-value=1.7e-08  Score=81.66  Aligned_cols=254  Identities=15%  Similarity=0.126  Sum_probs=183.0

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQ   86 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   86 (287)
                      ..+.+.|++.+|.-.|+.....++..-++|..|.......++-..|+..+++.++.. +-+......|...|...|.-..
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            456788999999999999988886655899999999999999999999999988753 2356677778888889999899


Q ss_pred             HHHHHHHHHhcCCCC--------cHHHHHHHHHHHHhcCCHHHHHHHHHHH-hcCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           87 LLIFIEEVVQIASPE--------SIIVVNRIIFAFAKSRQIEKALLIFDHI-KGLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        87 a~~~~~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      |...++..+...++-        +...-+.  ..+..........++|-++ ...+..+|......|.-.|.-.|++++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            999998876544210        0000000  1122223344455555444 4444346777888888888899999999


Q ss_pred             HHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          158 LNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL-LTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ...|+........ |...||-|...++...+..+|+..|.+.++.  .|+- .....|.-+|...|.+++|.+.|-..+.
T Consensus       450 iDcf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999998876543 6788999999999999999999999999876  5653 3445577788899999999988877653


Q ss_pred             C---------CCCcchHhHHHHHHHHHhcCChHHHHHHH
Q 023133          237 Q---------QIRPSIYVYRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       237 ~---------~~~~~~~~~~~li~~~~~~g~~~~a~~~~  266 (287)
                      .         +..++...|..|=.++.-.++.|.+.+..
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a~  565 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEAA  565 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHhc
Confidence            2         11223456776666666677766554443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.15  E-value=3.2e-08  Score=73.94  Aligned_cols=262  Identities=15%  Similarity=0.068  Sum_probs=158.4

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHH-HHHHHhc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTN-FARAFIM   80 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~~~~   80 (287)
                      +++.+..+.+..++++|++++....++++........+..+|....++..|-..++++...  .|...-|.. -...+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHH
Confidence            5678888899999999999999998888765578888999999999999999999998754  444443432 1234445


Q ss_pred             cCChHHHHHHHHHHHhcC-------------------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIA-------------------------------SPESIIVVNRIIFAFAKSRQIEKALLIFDHI  129 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~-------------------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  129 (287)
                      .+.+..|+.+...|.+..                               ...+..+.+.......+.|+++.|.+-|+..
T Consensus        91 A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaA  170 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAA  170 (459)
T ss_pred             hcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHH
Confidence            566666666655544310                               0122333344444455667777777777766


Q ss_pred             hcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-------------CCh---------------hHHHHHHH
Q 023133          130 KGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-------------PDF---------------ISYNTLLN  181 (287)
Q Consensus       130 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------~~~---------------~~~~~l~~  181 (287)
                      .+.+---....||..+.. .+.+++..|++...++.+.|++             ||+               ..+|.-..
T Consensus       171 lqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaA  249 (459)
T KOG4340|consen  171 LQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAA  249 (459)
T ss_pred             HhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhh
Confidence            654333344556554433 3556777777777777766643             111               11222233


Q ss_pred             HHHhcCchHHHHHHHHHHhh-CCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChH
Q 023133          182 NLRKIRRLDLCLIYFREMGE-SGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVD  260 (287)
Q Consensus       182 ~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  260 (287)
                      .+.+.++++.|.+.+..|.- .....|+.|...+.-.-. .+++-+..+-+.-+...+ +-...||..++-.||+..-++
T Consensus       250 Ieyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~  327 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFD  327 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHh
Confidence            34566777777777766652 122344555444332211 233444444444444432 234577888888888888888


Q ss_pred             HHHHHHHH
Q 023133          261 LAMTIFEE  268 (287)
Q Consensus       261 ~a~~~~~~  268 (287)
                      .|.+++-+
T Consensus       328 lAADvLAE  335 (459)
T KOG4340|consen  328 LAADVLAE  335 (459)
T ss_pred             HHHHHHhh
Confidence            77776643

>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=99.13  E-value=9.4e-09  Score=79.44  Aligned_cols=218  Identities=15%  Similarity=0.115  Sum_probs=145.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHH-HHHHHHhccC
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYT-NFARAFIMTD   82 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~   82 (287)
                      +.+++...|+.+.+   ..++.... .|+ .+...+...+...++-+.++.-+++.......++..++. .....+...|
T Consensus        41 ~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~  116 (290)
T PF04733_consen   41 QYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEG  116 (290)
T ss_dssp             HHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCC
T ss_pred             HHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcC
Confidence            45677777776643   34444433 444 566566555554455556665555554443332333333 3345677889


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH----HhcCCHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL----GRVGRVNDML  158 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~a~  158 (287)
                      ++++|+++++..      .+.......+..|.+.++++.|.+.++.|.+..  .|.. ...+..++    ...+.+++|.
T Consensus       117 ~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~~-l~qLa~awv~l~~g~e~~~~A~  187 (290)
T PF04733_consen  117 DYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--EDSI-LTQLAEAWVNLATGGEKYQDAF  187 (290)
T ss_dssp             HHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCHH-HHHHHHHHHHHHHTTTCCCHHH
T ss_pred             CHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHH-HHHHHHHHHHHHhCchhHHHHH
Confidence            999999887642      456677778899999999999999999999863  3443 33344433    3345799999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI-EESLRLFNDMKQQ  237 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~  237 (287)
                      .+|+++.+. ..+++.+.+.+..+....|++++|.+++.+..+.+ +-+..+...++-+....|+. +.+.+++.++...
T Consensus       188 y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  188 YIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             HHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             HHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            999998765 55788899999999999999999999999988764 33556766777777777877 7788899888864

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.

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

Probab=99.13  E-value=1.5e-07  Score=73.45  Aligned_cols=262  Identities=10%  Similarity=-0.008  Sum_probs=176.3

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChHH
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCTQ   86 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~   86 (287)
                      +-.++...|..++-.+......+.  +....+..++...|+.++|+..|++.+..  .|+ ..........+.+.|+++.
T Consensus       207 ~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~  284 (564)
T KOG1174|consen  207 MFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQ  284 (564)
T ss_pred             HHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhh
Confidence            334555555555555554444444  67777888888888888888888887643  332 2223333444567788888


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133           87 LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus        87 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      ...+...+.... ..+...|-.-+......++++.|+.+-++.++.. +.+...+-.-...+...|++++|.-.|+....
T Consensus       285 ~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~  362 (564)
T KOG1174|consen  285 DSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQM  362 (564)
T ss_pred             HHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHh
Confidence            877777776654 3444455555555666788888888888877654 33455555555677788899998888888776


Q ss_pred             cCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH-HHH-HhcCCHHHHHHHHHHHHhCCCCcch-
Q 023133          167 AGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI-DSF-GRTGNIEESLRLFNDMKQQQIRPSI-  243 (287)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~-~~~g~~~~a~~~~~~~~~~~~~~~~-  243 (287)
                      ... -+..+|..|+.+|...|.+.+|..+-+..... ++-+..+.+.+. ..+ .....-++|.++++...+.  .|+- 
T Consensus       363 Lap-~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~  438 (564)
T KOG1174|consen  363 LAP-YRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYT  438 (564)
T ss_pred             cch-hhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccH
Confidence            532 26788999999999999999888777665543 133444554442 222 2233457788888887764  5553 


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          244 YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      ..-..+...|...|..+++..++++.....||..-.
T Consensus       439 ~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH  474 (564)
T KOG1174|consen  439 PAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLH  474 (564)
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHH
Confidence            355667778889999999999999999988876543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.13  E-value=1.3e-08  Score=82.15  Aligned_cols=229  Identities=12%  Similarity=0.087  Sum_probs=176.3

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI  119 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  119 (287)
                      ..-+.+.|+..+|.-.|+...+.. +-+...|..|.......++-..|+..+++..+.. +.+..+.-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhH
Confidence            344568899999999999888764 4467899999999999999999999999999987 67788888899999999999


Q ss_pred             HHHHHHHHHHhcCCCC--------CCHhhHHHHHHHHHhcCCHHHHHHHHHHH-HHcCCCCChhHHHHHHHHHHhcCchH
Q 023133          120 EKALLIFDHIKGLKCK--------PDLITYNIVLDILGRVGRVNDMLNEFASM-KEAGVVPDFISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       120 ~~a~~~~~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~  190 (287)
                      ..|...++.-.....+        ++...-+.  ..+..........++|-++ .+.+.++|......|.-.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999998776543210        00000000  1222333445556666665 45555577788888888888999999


Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +|.+.|+..+... +-|..+||.|.-+++...+.++|+..|++.++.  .|+ +.+...|.-+|...|.+++|.+.|-.+
T Consensus       448 raiDcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~A  524 (579)
T KOG1125|consen  448 RAVDCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEA  524 (579)
T ss_pred             HHHHHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHH
Confidence            9999999998764 446679999999999999999999999999974  666 346666888899999999999999888


Q ss_pred             hhcCCC
Q 023133          270 NSSLSD  275 (287)
Q Consensus       270 ~~~~~~  275 (287)
                      +...+.
T Consensus       525 L~mq~k  530 (579)
T KOG1125|consen  525 LSMQRK  530 (579)
T ss_pred             HHhhhc
Confidence            554443

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.13  E-value=2.5e-07  Score=70.61  Aligned_cols=198  Identities=13%  Similarity=0.148  Sum_probs=121.3

Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      +...|+...|+.....+++.. +-|...+..-..+|...|++..|+.=++...+.. ..+..++.-+-..+...|+.+.+
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHH
Confidence            344455555555555555543 3455555555566666666666665555554432 23344444555556666666666


Q ss_pred             HHHHHHHHHcCCCCChhHH----HHH---------HHHHHhcCchHHHHHHHHHHhhCCCcCCHH---HHHHHHHHHHhc
Q 023133          158 LNEFASMKEAGVVPDFISY----NTL---------LNNLRKIRRLDLCLIYFREMGESGIKPDLL---TYTALIDSFGRT  221 (287)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~----~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~  221 (287)
                      +...++..+.  .||....    ..+         +......++|.++.+..+...+........   .+..+-.++...
T Consensus       243 L~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d  320 (504)
T KOG0624|consen  243 LKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYRED  320 (504)
T ss_pred             HHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeeccccc
Confidence            6666666554  3443221    111         112334556666666666666542221122   234455677788


Q ss_pred             CCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhh
Q 023133          222 GNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKD  281 (287)
Q Consensus       222 g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  281 (287)
                      |++.+|++...+..+.  .|| +.++.--..+|.-...+++|..-|+++....+++...+.
T Consensus       321 ~~~~eAiqqC~evL~~--d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~re  379 (504)
T KOG0624|consen  321 EQFGEAIQQCKEVLDI--DPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRARE  379 (504)
T ss_pred             CCHHHHHHHHHHHHhc--CchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHH
Confidence            8999999999998864  455 788888889999999999999999999888887765443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.12  E-value=5.9e-07  Score=66.18  Aligned_cols=262  Identities=13%  Similarity=0.132  Sum_probs=175.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      ++-+.-.|++..++..-....... .....-..+.++|...|.+...+.   +.... -.|....+..+.......++.+
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~-~~~e~d~y~~raylAlg~~~~~~~---eI~~~-~~~~lqAvr~~a~~~~~e~~~~   89 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK-TDVELDVYMYRAYLALGQYQIVIS---EIKEG-KATPLQAVRLLAEYLELESNKK   89 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc-chhHHHHHHHHHHHHccccccccc---ccccc-cCChHHHHHHHHHHhhCcchhH
Confidence            345556677777776655544332 111345556677777777654433   22222 2334444444444444445444


Q ss_pred             HHH-HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           86 QLL-IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        86 ~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      .-. ++.+.+.......+......-...|...+++++|++......      +......=+.++.+..+.+-|...++.|
T Consensus        90 ~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~m  163 (299)
T KOG3081|consen   90 SILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKM  163 (299)
T ss_pred             HHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            433 344455554444444444444567899999999999988732      3333333445667888999999999999


Q ss_pred             HHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          165 KEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      .+-.   +..|.+.|..++.+    .+...+|.-+|++|.+. ..|+..+.+....++...|++++|..++++..... .
T Consensus       164 q~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~  238 (299)
T KOG3081|consen  164 QQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-A  238 (299)
T ss_pred             Hccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-C
Confidence            8852   66788877777665    45788999999999874 38899999999999999999999999999999763 4


Q ss_pred             cchHhHHHHHHHHHhcCCh-HHHHHHHHHHhhcCCCCCChhhHh
Q 023133          241 PSIYVYRSLIDNLKKMGKV-DLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      .++.+...++.+-...|.. +-..+.+.+++...|..+-..++-
T Consensus       239 ~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~vk~~~  282 (299)
T KOG3081|consen  239 KDPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPFVKHLN  282 (299)
T ss_pred             CCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchHHHHHH
Confidence            4667777777666666655 556788899999988887665543

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.11  E-value=1.6e-08  Score=83.88  Aligned_cols=228  Identities=6%  Similarity=0.005  Sum_probs=178.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..-..+...+...|-...|+.+++++.         .|..++.+|...|+..+|..+..+..+.  +||+..|..+.+..
T Consensus       399 q~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~  467 (777)
T KOG1128|consen  399 QLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVL  467 (777)
T ss_pred             hHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhc
Confidence            444556778888899999999988763         4666888899999999999999888873  78999999999988


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      ....-+++|.++++.....       .-..+.....+.++++++.+.|+.-.+.+. ....+|-....+..+.++++.|.
T Consensus       468 ~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av  539 (777)
T KOG1128|consen  468 HDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAV  539 (777)
T ss_pred             cChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHH
Confidence            7777789999888765321       111222223347899999999988766543 25678888888889999999999


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      +.|....... +-+...||.+-.+|.+.|+-.+|...+.+..+.+ .-+...|...+....+-|.+++|++.+.++....
T Consensus       540 ~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  540 KAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             HHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            9999988763 3345689999999999999999999999999887 5667788888888889999999999999996655


Q ss_pred             CCCCChhhH
Q 023133          274 SDLAGPKDF  282 (287)
Q Consensus       274 ~~~~~~~~~  282 (287)
                      ....++++.
T Consensus       618 ~~~~d~~vl  626 (777)
T KOG1128|consen  618 KKYKDDEVL  626 (777)
T ss_pred             hhcccchhh
Confidence            444444443

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

Probab=99.11  E-value=7.7e-07  Score=70.86  Aligned_cols=265  Identities=8%  Similarity=0.037  Sum_probs=196.6

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHhccCChHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS-DCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      ..+++..|.++|++...-+...-..|..-+.+-.++.....|..++++....  -|.. ..|-..+..=-..|+...|.+
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHH
Confidence            3567788999999998876443368888888888999999999999998864  3332 334444555556799999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-C
Q 023133           90 FIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA-G  168 (287)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~  168 (287)
                      +|+...+-  .|+...|++.++.=.+-+.++.|..++++..-.  .|++.+|--....=.++|+...|..+|+...+. |
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEFLG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh
Confidence            99998774  699999999999999999999999999998765  699999988888888999999999999988664 1


Q ss_pred             C-CCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC--HHHHHHHHHHHHhcCCHHHHHH--------HHHHHHhC
Q 023133          169 V-VPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD--LLTYTALIDSFGRTGNIEESLR--------LFNDMKQQ  237 (287)
Q Consensus       169 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~--------~~~~~~~~  237 (287)
                      - ..+...+.++..--.++..++.|.-+|+-.++. ++.+  ...|..+...--+-|+.....+        -++.+++.
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~  317 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSK  317 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHh
Confidence            1 112334555555455677888999999888875 2223  3456666555555666443332        23344443


Q ss_pred             CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          238 QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      + +.|-.+|--.+..--..|+.+...++|+++....|....-..|.
T Consensus       318 n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~  362 (677)
T KOG1915|consen  318 N-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWR  362 (677)
T ss_pred             C-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHH
Confidence            2 55777888888888888999999999999988877654444444

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.09  E-value=5.4e-08  Score=73.77  Aligned_cols=167  Identities=11%  Similarity=0.073  Sum_probs=114.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-C-CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcH--HHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-L-SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESI--IVVNRI  109 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l  109 (287)
                      ..+..+...+...|+++.|...++++...... | ....+..+..++...|++++|...++++.+.......  .++..+
T Consensus        34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~  113 (235)
T TIGR03302        34 EELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYLR  113 (235)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHHH
Confidence            56777777777788888888888777664311 1 1135566677777778888888888877765422111  234445


Q ss_pred             HHHHHhc--------CCHHHHHHHHHHHhcCCCCCCHh-hH-----------------HHHHHHHHhcCCHHHHHHHHHH
Q 023133          110 IFAFAKS--------RQIEKALLIFDHIKGLKCKPDLI-TY-----------------NIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus       110 ~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~-~~-----------------~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ..++...        |++++|.+.|+.+.+.  .|+.. .+                 ..+...+.+.|++++|...++.
T Consensus       114 g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~  191 (235)
T TIGR03302       114 GLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAINRFET  191 (235)
T ss_pred             HHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            5555544        6777788888777655  23321 11                 1345678899999999999999


Q ss_pred             HHHcCC-CC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          164 MKEAGV-VP-DFISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       164 ~~~~~~-~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                      ..+... .| ....+..+..++.+.|+.++|..+++.+...
T Consensus       192 al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       192 VVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            887632 12 3568889999999999999999999888765

Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.08  E-value=1.7e-07  Score=68.56  Aligned_cols=119  Identities=6%  Similarity=-0.007  Sum_probs=66.7

Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhcCc--hHHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-LRKIRR--LDLC  192 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~--~~~a  192 (287)
                      .++.+++...++...+.. +.+...|..+...|...|++++|...|++....... +...+..+..+ +...|+  .++|
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            445555555555554443 345556666666666666666666666666554432 44555555544 244444  3666


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .+++++..+.+ +-+...+..+...+...|++++|+..|+++.+.
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l  173 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDL  173 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            66666666553 234455555666666666666666666666654

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

Probab=99.07  E-value=7.6e-07  Score=74.70  Aligned_cols=260  Identities=13%  Similarity=0.061  Sum_probs=183.1

Q ss_pred             hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEV   94 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   94 (287)
                      ..++++.+++..+.++..+.+...+.--|+..++.+.|++...+.++.+..-+...|..+.-.+...+++.+|+.+.+..
T Consensus       460 h~kslqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            45677888888888887776666666778889999999999999999877788899999999999999999999999877


Q ss_pred             HhcCCC-------------------CcHHHHHHHHHHHHhc-----------------------CCHHHHHHHHHHH---
Q 023133           95 VQIASP-------------------ESIIVVNRIIFAFAKS-----------------------RQIEKALLIFDHI---  129 (287)
Q Consensus        95 ~~~~~~-------------------~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~---  129 (287)
                      ...-..                   ....++..++..+-..                       .+..++.+....+   
T Consensus       540 l~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l  619 (799)
T KOG4162|consen  540 LEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSL  619 (799)
T ss_pred             HHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHH
Confidence            654211                   0112222222222100                       0111111111111   


Q ss_pred             -----hcCC---------CCC--C------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Q 023133          130 -----KGLK---------CKP--D------LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR  187 (287)
Q Consensus       130 -----~~~~---------~~~--~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  187 (287)
                           ...|         +.|  +      ...|......+.+.++.++|...+.+..... ......|......+...|
T Consensus       620 ~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~  698 (799)
T KOG4162|consen  620 VASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKG  698 (799)
T ss_pred             HHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHH
Confidence                 0001         011  1      1123445566777788888887777776653 235566777777888899


Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHH--HHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLR--LFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                      .+.+|.+.|......+ +-++.....+..++.+.|+..-|.+  ++.++.+.+ +.+...|..+...+-+.|+.+.|.+.
T Consensus       699 ~~~EA~~af~~Al~ld-P~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaec  776 (799)
T KOG4162|consen  699 QLEEAKEAFLVALALD-PDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAEC  776 (799)
T ss_pred             hhHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHH
Confidence            9999999999888763 3345678889999999998888887  999999875 55788999999999999999999999


Q ss_pred             HHHHhhcCCCCC
Q 023133          266 FEEMNSSLSDLA  277 (287)
Q Consensus       266 ~~~~~~~~~~~~  277 (287)
                      |....+..+..|
T Consensus       777 f~aa~qLe~S~P  788 (799)
T KOG4162|consen  777 FQAALQLEESNP  788 (799)
T ss_pred             HHHHHhhccCCC
Confidence            999877665554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.05  E-value=3e-08  Score=82.33  Aligned_cols=213  Identities=8%  Similarity=0.065  Sum_probs=159.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCC
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDD   83 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   83 (287)
                      .+...+.+.|-...|..+|+++.        .|..++.+|...|+..+|..+..+..+  -+|++..|..+.+......-
T Consensus       403 ~laell~slGitksAl~I~Erle--------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERLE--------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhHH--------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHH
Confidence            35677888999999999998875        688889999999999999999888877  47888888888887777777


Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      +++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.+ +-...+|-.+..+..+.++++.|.+.|..
T Consensus       473 yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~r  544 (777)
T KOG1128|consen  473 YEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHR  544 (777)
T ss_pred             HHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHH
Confidence            77777777654322       22223333344688888888887765543 34666787788888888888888888888


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       164 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ....... +...||.+-.+|.+.++-.+|...+.+..+.+ .-+...|...+....+.|.+++|++.+.++.+
T Consensus       545 cvtL~Pd-~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  545 CVTLEPD-NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HhhcCCC-chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            7765322 55778888888888888888888888888776 33444555566667788888888888887764

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=99.05  E-value=4.5e-07  Score=80.64  Aligned_cols=235  Identities=11%  Similarity=0.052  Sum_probs=165.1

Q ss_pred             HHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH-----HHHHHHHHHHhccCChHHHHHHHHHHHh
Q 023133           22 LQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS-----DCYTNFARAFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        22 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~   96 (287)
                      |++....++...-.|-..+..+.+.++.+.|.++.++.+.. +.+..     ..|.++++.-..-|.-+...++|+++.+
T Consensus      1447 ferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq 1525 (1710)
T KOG1070|consen 1447 FERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ 1525 (1710)
T ss_pred             HHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH
Confidence            44444444443367888888888888888898888888754 33322     3566666666666777888888888877


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-ChhH
Q 023133           97 IASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVP-DFIS  175 (287)
Q Consensus        97 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~  175 (287)
                      ..  ....+|..|...|.+.+.+++|.++++.|.+.- .-....|...+..+.++.+-+.|.+++.+..+.-.+- -...
T Consensus      1526 yc--d~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~ 1602 (1710)
T KOG1070|consen 1526 YC--DAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEF 1602 (1710)
T ss_pred             hc--chHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHH
Confidence            53  335678888888888888999999998887642 2456688888888888888888888888876642111 1223


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcch--HhHHHHHHHH
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI--YVYRSLIDNL  253 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~li~~~  253 (287)
                      ....+..-.+.|+.+.+..+|+..+... +--...|+..++.-.++|+.+.++.+|++....++.|-.  ..|...+..=
T Consensus      1603 IskfAqLEFk~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyE 1681 (1710)
T KOG1070|consen 1603 ISKFAQLEFKYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYE 1681 (1710)
T ss_pred             HHHHHHHHhhcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHH
Confidence            3444555567788888888888887653 334567888888888888888899999988887766643  3555555544


Q ss_pred             HhcCChHH
Q 023133          254 KKMGKVDL  261 (287)
Q Consensus       254 ~~~g~~~~  261 (287)
                      -..|+-+.
T Consensus      1682 k~~Gde~~ 1689 (1710)
T KOG1070|consen 1682 KSHGDEKN 1689 (1710)
T ss_pred             HhcCchhh
Confidence            45555433

>PF12854 PPR_1: PPR repeat

Probab=99.01  E-value=6.2e-10  Score=55.85  Aligned_cols=30  Identities=37%  Similarity=0.917  Sum_probs=12.6

Q ss_pred             CcCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          204 IKPDLLTYTALIDSFGRTGNIEESLRLFND  233 (287)
Q Consensus       204 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  233 (287)
                      +.||..||+.||++|++.|++++|.++|++
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            344444444444444444444444444443

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=99.01  E-value=1.6e-07  Score=68.66  Aligned_cols=156  Identities=8%  Similarity=0.041  Sum_probs=114.7

Q ss_pred             HHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 023133           41 VASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE  120 (287)
Q Consensus        41 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  120 (287)
                      -.|...|+++.+....+.+.    .|.        ..+...++.+++...++...+.. +.+...|..+...|...|+++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~----~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLA----DPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHh----Ccc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHH
Confidence            46778888877644432221    111        12223567778888888887776 678889999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCHhhHHHHHHHH-HhcCC--HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHH
Q 023133          121 KALLIFDHIKGLKCKPDLITYNIVLDIL-GRVGR--VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFR  197 (287)
Q Consensus       121 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  197 (287)
                      +|...|++..+.. +.+...+..+..++ ...|+  .++|.+++++..+.+.. +..++..+...+...|++++|...|+
T Consensus        91 ~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         91 NALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999888775 34666777777764 56676  58999999999887654 67788888888999999999999999


Q ss_pred             HHhhCCCcCCHHHHH
Q 023133          198 EMGESGIKPDLLTYT  212 (287)
Q Consensus       198 ~~~~~~~~~~~~~~~  212 (287)
                      ++.+.. +|+..-+.
T Consensus       169 ~aL~l~-~~~~~r~~  182 (198)
T PRK10370        169 KVLDLN-SPRVNRTQ  182 (198)
T ss_pred             HHHhhC-CCCccHHH
Confidence            988764 55554443

>PF12854 PPR_1: PPR repeat

Probab=99.00  E-value=7.4e-10  Score=55.57  Aligned_cols=32  Identities=38%  Similarity=0.813  Sum_probs=15.8

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          133 KCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus       133 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      |+.||..||++||.+|++.|++++|.++|++|
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            34445555555555555555555555554444

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.00  E-value=4.7e-08  Score=67.70  Aligned_cols=99  Identities=12%  Similarity=-0.062  Sum_probs=50.4

Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCC
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGK  258 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  258 (287)
                      ....+...|++++|...|+...... +.+...+..+..++...|++++|...|++..+.. +.+...+..+..++...|+
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            3444455555555555555555442 2344455555555555555555555555555432 2344455555555555555


Q ss_pred             hHHHHHHHHHHhhcCCCCCCh
Q 023133          259 VDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       259 ~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      +++|...|++.....|+++..
T Consensus       108 ~~eAi~~~~~Al~~~p~~~~~  128 (144)
T PRK15359        108 PGLAREAFQTAIKMSYADASW  128 (144)
T ss_pred             HHHHHHHHHHHHHhCCCChHH
Confidence            555555555555555554443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.99  E-value=3.5e-06  Score=76.70  Aligned_cols=270  Identities=8%  Similarity=-0.004  Sum_probs=178.9

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCc-----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC---C--CHHHHHHHHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLP-----NAYNCVLVASAETNDIDLSFQILKDLLVSSRT---L--SSDCYTNFAR   76 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~--~~~~~~~l~~   76 (287)
                      ..+...|++++|...+++.........     .+.+.+...+...|+++.|...+++.......   +  .......+..
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            445678999999999998765322111     24456667778899999999999888643211   1  1234455667


Q ss_pred             HHhccCChHHHHHHHHHHHhc----CCC---CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--CCC--CHhhHHHHH
Q 023133           77 AFIMTDDCTQLLIFIEEVVQI----ASP---ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK--CKP--DLITYNIVL  145 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~----~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~--~~~~~~~l~  145 (287)
                      .+...|+++.|...+++..+.    +..   .....+..+...+...|++++|...+.+.....  ..+  ....+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            788899999999998876543    211   123345556667788899999999988765421  112  233445566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCC-ChhHH-----HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH---HHHHHHHH
Q 023133          146 DILGRVGRVNDMLNEFASMKEAGVVP-DFISY-----NTLLNNLRKIRRLDLCLIYFREMGESGIKPDL---LTYTALID  216 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~-----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~  216 (287)
                      ..+...|++++|.+.+.......... ....+     ...+..+...|+.+.|.+.+............   ..+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            77889999999999998875421110 11111     11224455678999999998776542211111   12345677


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC----CCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          217 SFGRTGNIEESLRLFNDMKQQ----QIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      ++...|++++|...+++....    |..++ ..+...+..++...|+.++|...+.++.......
T Consensus       700 ~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la~~~  764 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLANRT  764 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCcc
Confidence            788999999999999988753    32222 3456677778899999999999999997765443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.95  E-value=1.2e-07  Score=69.59  Aligned_cols=163  Identities=11%  Similarity=-0.012  Sum_probs=133.1

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .. ..+-..+...|+-+....+....... .+-+....+..+....+.|++..|...+++..... ++|...|+.+.-+|
T Consensus        68 ~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaal  144 (257)
T COG5010          68 SI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAAL  144 (257)
T ss_pred             HH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHH
Confidence            44 66677788888888888887776532 23355566668899999999999999999998876 78999999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      .+.|+.+.|..-|.+..+.. .-+....|.+.-.+.-.|+.+.|..++......+.. |...-..+.......|++++|.
T Consensus       145 dq~Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~  222 (257)
T COG5010         145 DQLGRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAE  222 (257)
T ss_pred             HHccChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHH
Confidence            99999999999999988764 335667788888889999999999999999887654 6677777888889999999999


Q ss_pred             HHHHHHhh
Q 023133          194 IYFREMGE  201 (287)
Q Consensus       194 ~~~~~~~~  201 (287)
                      .+...-..
T Consensus       223 ~i~~~e~~  230 (257)
T COG5010         223 DIAVQELL  230 (257)
T ss_pred             hhcccccc
Confidence            98876553

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.94  E-value=1.1e-06  Score=64.60  Aligned_cols=160  Identities=14%  Similarity=0.102  Sum_probs=111.0

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc
Q 023133           72 TNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV  151 (287)
Q Consensus        72 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  151 (287)
                      ..+-..+...|+-+....+....... .+.+....+.++....+.|++..|...+.+..... ++|...|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            44556666667767666666654333 24566666667777788888888888888776654 56777888888888888


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133          152 GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLF  231 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  231 (287)
                      |+.++|..-|.+..+.-.. +...++.+.-.+.-.|+.+.|..++......+ .-|...-..|.-.....|++++|.++.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            8888888888777765333 44566777777777788888888887776654 335556666777777778888887776


Q ss_pred             HHHH
Q 023133          232 NDMK  235 (287)
Q Consensus       232 ~~~~  235 (287)
                      ..-.
T Consensus       226 ~~e~  229 (257)
T COG5010         226 VQEL  229 (257)
T ss_pred             cccc
Confidence            5443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.94  E-value=2.5e-06  Score=73.74  Aligned_cols=133  Identities=12%  Similarity=0.106  Sum_probs=68.7

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI-TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                      +.+...+..|.....+.|.+++|..+++...+.  .||.. ....+..++.+.+++++|...+++....... +......
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~  159 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILL  159 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHH
Confidence            344555555555555555555555555555544  33322 3444555555555555555555555554322 3344444


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +..++.+.|++++|..+|+++...+ +-+..++..+..++...|+.++|...|+...+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555555555421 22244555555555555555555555555554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.94  E-value=1.7e-06  Score=66.47  Aligned_cols=256  Identities=12%  Similarity=0.040  Sum_probs=142.1

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHH-HHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNC-VLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      ..-.+++|++++.++...++.- ...+. +.-+|.+..-++-+.+++.-.++. .+-+....|..+....+.=+-..|..
T Consensus       163 mR~HYQeAIdvYkrvL~dn~ey-~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~  240 (557)
T KOG3785|consen  163 MRMHYQEAIDVYKRVLQDNPEY-IALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAED  240 (557)
T ss_pred             HHHHHHHHHHHHHHHHhcChhh-hhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHH
Confidence            3345889999999988766432 23333 444677778788888888777654 33333334433322222211111111


Q ss_pred             H--------------HHHHHhcCC------------CC-----cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH
Q 023133           90 F--------------IEEVVQIAS------------PE-----SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL  138 (287)
Q Consensus        90 ~--------------~~~~~~~~~------------~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  138 (287)
                      -              .+.+.+.+.            -|     -+..--.|+-.|.+.+++.+|..+.+++.    +.+.
T Consensus       241 E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP  316 (557)
T KOG3785|consen  241 EKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLD----PTTP  316 (557)
T ss_pred             HHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcC----CCCh
Confidence            1              111111110            00     01122234445777888888887777664    1122


Q ss_pred             hhH-------------------------------------------HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhH
Q 023133          139 ITY-------------------------------------------NIVLDILGRVGRVNDMLNEFASMKEAGVVPDFIS  175 (287)
Q Consensus       139 ~~~-------------------------------------------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  175 (287)
                      .-|                                           .++.+.+.-..++++++.+++.+...=...|...
T Consensus       317 ~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn  396 (557)
T KOG3785|consen  317 YEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFN  396 (557)
T ss_pred             HHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhh
Confidence            222                                           1222222223334444444444433322222222


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHH-HHHHHHH
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYR-SLIDNLK  254 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~li~~~~  254 (287)
                      | .+.++++..|+..+|.++|-++....++.+..-...|..+|.+.+.++.|+.++-++..   +.+..+.. .+..-|.
T Consensus       397 ~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CY  472 (557)
T KOG3785|consen  397 L-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCY  472 (557)
T ss_pred             h-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHH
Confidence            3 36677888899999999998887655443433445567889999999999887755442   23344333 3445688


Q ss_pred             hcCChHHHHHHHHHHhhcCCCC
Q 023133          255 KMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      +++++--|.+.|+.+..+.|..
T Consensus       473 k~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  473 KANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHHHHHHHHhhhHHHccCCCc
Confidence            8999988999999887776543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.93  E-value=8.7e-08  Score=65.88  Aligned_cols=105  Identities=13%  Similarity=0.097  Sum_probs=56.8

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      ...+...+...|++++|.+.++.+.+.+ +.+...+..+..++...|++++|..+++...+.+ +.+...+..+...+..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3444445555556666666665555443 3344555555555555566666666666555432 3334455555555566


Q ss_pred             cCChHHHHHHHHHHhhcCCCCCChhhH
Q 023133          256 MGKVDLAMTIFEEMNSSLSDLAGPKDF  282 (287)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~~~~~  282 (287)
                      .|++++|...|++..+..|+......+
T Consensus        98 ~g~~~~A~~~~~~al~~~p~~~~~~~~  124 (135)
T TIGR02552        98 LGEPESALKALDLAIEICGENPEYSEL  124 (135)
T ss_pred             cCCHHHHHHHHHHHHHhccccchHHHH
Confidence            666666666666666655555543333

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.93  E-value=4.7e-06  Score=68.82  Aligned_cols=260  Identities=11%  Similarity=0.142  Sum_probs=188.4

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIF   90 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   90 (287)
                      ..+++...+++.+.+.+..+..+++.....-.+...|+-++|........... .-+..+|+.+.-.+....++++|++.
T Consensus        19 E~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHH
Confidence            66788888888888888766655777777777888899999999888877643 34667888777777778899999999


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-C
Q 023133           91 IEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG-V  169 (287)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~  169 (287)
                      ++.+...+ +.|..+|.-+.-.-++.|+++.....-..+.+.. +.....|..+..++.-.|++..|..+++...+.. -
T Consensus        98 y~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   98 YRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            99999987 6788888888888888899999988888887763 2345578888888889999999999999987664 2


Q ss_pred             CCChhHHHHHH------HHHHhcCchHHHHHHHHHHhhCCCcCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          170 VPDFISYNTLL------NNLRKIRRLDLCLIYFREMGESGIKPDLLTY-TALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       170 ~~~~~~~~~l~------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      .|+...|....      ......|..+.|.+.+..-...  ..|-..+ ..-...+.+.+++++|..++..++..  .||
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPd  251 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPD  251 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--Cch
Confidence            45665554332      2345677788888877665433  2233332 34456678899999999999999986  365


Q ss_pred             hHhHH-HHHHHHHhcCChHHHH-HHHHHHhhcCCCCC
Q 023133          243 IYVYR-SLIDNLKKMGKVDLAM-TIFEEMNSSLSDLA  277 (287)
Q Consensus       243 ~~~~~-~li~~~~~~g~~~~a~-~~~~~~~~~~~~~~  277 (287)
                      -.-|. .+..++.+--+.-++. .+|....+..|...
T Consensus       252 n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e  288 (700)
T KOG1156|consen  252 NLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHE  288 (700)
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccc
Confidence            55444 4444554333333444 66666655555443

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.93  E-value=1.1e-05  Score=66.76  Aligned_cols=59  Identities=19%  Similarity=0.271  Sum_probs=40.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCcch-HhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMKQQQIRPSI-YVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      .++..+-..|+++.|..+++....+  .|+. ..|..=...+...|++++|..++++.++..
T Consensus       376 ~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  376 FLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            4566677777888888887777764  4443 355555667777788888888887776654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.90  E-value=2e-06  Score=75.33  Aligned_cols=148  Identities=9%  Similarity=0.053  Sum_probs=95.9

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          102 SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       102 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                      +..++..+..+|-+.|+.++|..+++++.+.. +-+..+.|.+...|... +.++|.+++.+....-+  +..-|+.+..
T Consensus       115 ~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--~~kq~~~~~e  190 (906)
T PRK14720        115 NKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--KKKQYVGIEE  190 (906)
T ss_pred             hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--hhhcchHHHH
Confidence            34567778888888888888888888888776 45677788888888888 88888888877765411  1111222211


Q ss_pred             HH-----HhcCchHHHHHHHHHHhhC-CCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHH
Q 023133          182 NL-----RKIRRLDLCLIYFREMGES-GIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       182 ~~-----~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  254 (287)
                      .+     ....+.+.-.++.+.+... |..--..++-.+...|...++++++..+++.+.+.. +-|.....-++.+|.
T Consensus       191 ~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        191 IWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            11     1122333444444444432 333344566677788888899999999999999863 335566677777765

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.89  E-value=2.5e-07  Score=64.09  Aligned_cols=92  Identities=13%  Similarity=0.003  Sum_probs=49.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                      +...+...|++++|...|+.+.... +.+...|..+..++.+.|++++|...|++..+.. +.+...+..+..++...|+
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            4444555555555555555555544 3445555555555555555555555555555443 2344455555555555555


Q ss_pred             HHHHHHHHHHHHHc
Q 023133          154 VNDMLNEFASMKEA  167 (287)
Q Consensus       154 ~~~a~~~~~~~~~~  167 (287)
                      +++|...|+...+.
T Consensus       108 ~~eAi~~~~~Al~~  121 (144)
T PRK15359        108 PGLAREAFQTAIKM  121 (144)
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555555443

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

Probab=98.88  E-value=8.3e-06  Score=68.71  Aligned_cols=162  Identities=14%  Similarity=0.149  Sum_probs=93.3

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHh-
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTL-SSDCYTNFARAFI-   79 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~-   79 (287)
                      |..|.-++...|+++.+.+.|++.........+.|+.+...+...|.-..|+.+++.-......| +...+-.....|. 
T Consensus       326 ~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lmasklc~e  405 (799)
T KOG4162|consen  326 FDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMASKLCIE  405 (799)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHHHHHHHh
Confidence            45566666777777777777776654433333556666666666666556665555543322112 2222222222222 


Q ss_pred             ccCChHH--------------------------------------------------HHHHHHHHHhcCCCCcHHHHHHH
Q 023133           80 MTDDCTQ--------------------------------------------------LLIFIEEVVQIASPESIIVVNRI  109 (287)
Q Consensus        80 ~~~~~~~--------------------------------------------------a~~~~~~~~~~~~~~~~~~~~~l  109 (287)
                      +.+..++                                                  +.+.+++..+.+ +.|+.+...+
T Consensus       406 ~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d-~~dp~~if~l  484 (799)
T KOG4162|consen  406 RLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFD-PTDPLVIFYL  484 (799)
T ss_pred             chhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcC-CCCchHHHHH
Confidence            2233333                                                  344444444444 2333333334


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          110 IFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus       110 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      .--|+..++++.|.+...+..+.+-..+...|..+.-.+...+++.+|+.+.+..
T Consensus       485 alq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  485 ALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            4457778888999988888888755677888888888888888888777776554

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.86  E-value=4.7e-06  Score=74.52  Aligned_cols=227  Identities=7%  Similarity=-0.031  Sum_probs=177.0

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcC-CCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKN-IFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFAR   76 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   76 (287)
                      |-.-|....+.++.+.|.+++++....= ....    ..|.++++.-...|.-+...++|+++.+..-  .-..|..|..
T Consensus      1461 WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd--~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1461 WIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCD--AYTVHLKLLG 1538 (1710)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcc--hHHHHHHHHH
Confidence            3345667788999999999999986542 2111    5788888887788888889999999987531  2345778899


Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC---HhhHHHHHHHHHhcCC
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD---LITYNIVLDILGRVGR  153 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~  153 (287)
                      .|.+...+++|.++++.|.+.- .....+|...++.+.+.++-+.|..++.+..+.  -|-   .....-.+..-.+.|+
T Consensus      1539 iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhcCC
Confidence            9999999999999999998863 477889999999999999999999999988765  343   2334445556678999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH--HHHHHHHHHHHhcCCHHHHHHHH
Q 023133          154 VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL--LTYTALIDSFGRTGNIEESLRLF  231 (287)
Q Consensus       154 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~  231 (287)
                      .+++..+|+.......+ -...|+..+..-.+.|+.+.+..+|++....++.|-.  ..|...+..--+.|+-..+..+=
T Consensus      1616 aeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~VK 1694 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYVK 1694 (1710)
T ss_pred             chhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHHH
Confidence            99999999999877544 5678999999999999999999999999998876654  35666666666667755554443


Q ss_pred             HHH
Q 023133          232 NDM  234 (287)
Q Consensus       232 ~~~  234 (287)
                      .++
T Consensus      1695 arA 1697 (1710)
T KOG1070|consen 1695 ARA 1697 (1710)
T ss_pred             HHH
Confidence            333

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.86  E-value=3.1e-06  Score=73.20  Aligned_cols=148  Identities=10%  Similarity=-0.046  Sum_probs=120.8

Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHH
Q 023133           64 RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNI  143 (287)
Q Consensus        64 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  143 (287)
                      .+.+...+..|.....+.|.+++|..+++...+.. |.+......+...+.+.+++++|...+++..... +-+......
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            44567888888899999999999999999999886 5677788889999999999999999999998774 334556677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          144 VLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       144 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      +..++.+.|++++|..+|+++...+. -+..++..+..++...|+.++|...|+...+.. .|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH
Confidence            78888899999999999999988543 257888899999999999999999999988653 44555555443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.85  E-value=8.4e-07  Score=66.60  Aligned_cols=95  Identities=12%  Similarity=0.027  Sum_probs=71.1

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHH-HHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNR-IIFA  112 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-l~~~  112 (287)
                      .-+.+.+..+.+..++.+|++++..-.++. +.+......+..+|....++..|-..++++-...  |...-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHH
Confidence            457788888889999999999998887753 2366677888899999999999999999987764  33333322 2345


Q ss_pred             HHhcCCHHHHHHHHHHHhc
Q 023133          113 FAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~  131 (287)
                      +.+.+.+.+|..+...|..
T Consensus        88 LY~A~i~ADALrV~~~~~D  106 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLD  106 (459)
T ss_pred             HHHhcccHHHHHHHHHhcC
Confidence            6677888888888877764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=1.9e-05  Score=63.98  Aligned_cols=103  Identities=13%  Similarity=0.079  Sum_probs=64.9

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   85 (287)
                      .+.+..|+++.|+..|.+....++..-..|..-..+|+..|++++|++=-.+-++  +.|+ +..|.....++.-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            4556778888888888877766655226677777777777777777665555444  3454 345666677777777777


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      +|...|.+-++.. +.+...++.+.++
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a  113 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQA  113 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHh
Confidence            7777776655543 3333334433333

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.80  E-value=1.9e-05  Score=58.09  Aligned_cols=187  Identities=13%  Similarity=0.091  Sum_probs=134.8

Q ss_pred             CChhHHHHHHHHHHHh---c-CCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           47 NDIDLSFQILKDLLVS---S-RTLSSDC-YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        47 ~~~~~a~~~~~~~~~~---~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      .+.++.++++.+++..   | ..++..+ |..++-+....++.+.|...++++.+.- |.+..+-..-...+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhh
Confidence            3466677777666532   3 4455443 4455666777888899999998887764 4444444444444666789999


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      |+++++.+.+.. +.|..++-.-+...-..|+.-+|++-+....+. +..|...|..+...|...|++++|.-+++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999988775 556677777777777788888888888888776 445889999999999999999999999999886


Q ss_pred             CCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Q 023133          202 SGIKPDLLTYTALIDSFGRTG---NIEESLRLFNDMKQQ  237 (287)
Q Consensus       202 ~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~  237 (287)
                      .. +.+...+..+...+...|   +.+.+.++|.+..+.
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            53 445556666766655444   466788888888875

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.79  E-value=6.2e-07  Score=61.61  Aligned_cols=95  Identities=13%  Similarity=0.080  Sum_probs=53.7

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           71 YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        71 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      ...+...+...|++++|.+.++.+.+.+ +.+...+..+...+.+.|++++|...+++..+.+ +.+...+..+..++..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3444455555566666666666655544 3455555556666666666666666666555443 3344455555556666


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 023133          151 VGRVNDMLNEFASMKEA  167 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~  167 (287)
                      .|++++|...|+...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        98 LGEPESALKALDLAIEI  114 (135)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666665554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.78  E-value=1.9e-05  Score=63.40  Aligned_cols=118  Identities=15%  Similarity=0.134  Sum_probs=57.2

Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCHh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhcCchH
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDLI-TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD-FISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  190 (287)
                      +...|++++|+..++.+...  .|+.. -+......+.+.++..+|.+.++.+....  |+ ....-.+..++.+.|++.
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChH
Confidence            34445555555555555443  23322 23334445555555555555555555432  22 333344445555555555


Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|..++++..... +.|...|..|..+|...|+..++.....+..
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~  435 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGY  435 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            5555555554432 3344555555555555555555544444443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.77  E-value=2.9e-05  Score=70.75  Aligned_cols=267  Identities=11%  Similarity=0.012  Sum_probs=170.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCC------CCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH----HHHH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNI------FLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS----DCYT   72 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~------~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~   72 (287)
                      ...+...|++++|...+......-.      .+.   .....+...+...|+++.|...+++....-...+.    ...+
T Consensus       416 a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~  495 (903)
T PRK04841        416 AWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATS  495 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHH
Confidence            3445678899999998887644211      111   22333445567889999999999988763211121    2345


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhc----CC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCC--C-CHhh
Q 023133           73 NFARAFIMTDDCTQLLIFIEEVVQI----AS-PESIIVVNRIIFAFAKSRQIEKALLIFDHIKG----LKCK--P-DLIT  140 (287)
Q Consensus        73 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~--~-~~~~  140 (287)
                      .+...+...|++++|...+++....    |. .....++..+...+...|++++|...+++...    .+..  + ....
T Consensus       496 ~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  575 (903)
T PRK04841        496 VLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFL  575 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHH
Confidence            5566677899999999999887643    21 11234556677788899999999999877644    2211  1 1223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCC--ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC--CcCCHH--HH-
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEA--GVVP--DFISYNTLLNNLRKIRRLDLCLIYFREMGESG--IKPDLL--TY-  211 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~--~~-  211 (287)
                      +..+...+...|++++|...+.+....  ...+  ....+..+...+...|+.++|.+.+.......  ......  .. 
T Consensus       576 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~  655 (903)
T PRK04841        576 LRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANA  655 (903)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHH
Confidence            445566677889999999999887543  1112  23445556667888999999999988875421  111111  10 


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc---hHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          212 -TALIDSFGRTGNIEESLRLFNDMKQQQIRPS---IYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       212 -~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                       ...+..+...|+.+.|..++...........   ...+..+..++...|++++|...++++...
T Consensus       656 ~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~  720 (903)
T PRK04841        656 DKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNEN  720 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             1122445568999999999877654211111   112345667788999999999999998664

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.77  E-value=4.9e-05  Score=63.19  Aligned_cols=61  Identities=16%  Similarity=0.134  Sum_probs=34.7

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD---LLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .|..+...|-..|+++.|..+|++..+...+--   ..+|..-...-.+..+++.|+++++...
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~  452 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRAT  452 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhh
Confidence            456666677777777777777777665432211   2244444445555555666666555543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.76  E-value=4.6e-06  Score=64.25  Aligned_cols=57  Identities=23%  Similarity=0.197  Sum_probs=43.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .+.++++..|.+.+|.++|-......++.+..-.+.|..+|.+++.++.|.+++-++
T Consensus       398 N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~  454 (557)
T KOG3785|consen  398 NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKT  454 (557)
T ss_pred             HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhc
Confidence            366778888999999999988765545544555566778899999999998888665

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.76  E-value=4.6e-05  Score=62.59  Aligned_cols=192  Identities=12%  Similarity=0.087  Sum_probs=113.4

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      ++.+...|++++|.+..+++...++.+..++..-+.+.++.+.+++|+.+.+.-...  ..+...+..=+.+..+.+..+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHH
Confidence            456677899999999999999888555578888888999999999998665443210  111111112233444677777


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC-------------------------C--CH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCK-------------------------P--DL  138 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------------------------~--~~  138 (287)
                      +|+..++-..    +.+..+...-...+.+.|++++|..+|+.+.+.+..                         |  ..
T Consensus        97 ealk~~~~~~----~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~~v~e  172 (652)
T KOG2376|consen   97 EALKTLKGLD----RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVPEVPE  172 (652)
T ss_pred             HHHHHHhccc----ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhccCCCc
Confidence            7777766211    122335555566677777788888777777544310                         0  01


Q ss_pred             hhHHHH---HHHHHhcCCHHHHHHHHHHHHHcC--------CC-CCh-----hHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          139 ITYNIV---LDILGRVGRVNDMLNEFASMKEAG--------VV-PDF-----ISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       139 ~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~--------~~-~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      .+|..+   ...+...|++.+|+++++.....+        .. -+.     ..-..+...+...|+.++|..++...++
T Consensus       173 ~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~  252 (652)
T KOG2376|consen  173 DSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIK  252 (652)
T ss_pred             chHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            122222   234456778888888877762211        00 000     0112234455667777777777777665


Q ss_pred             CC
Q 023133          202 SG  203 (287)
Q Consensus       202 ~~  203 (287)
                      ..
T Consensus       253 ~~  254 (652)
T KOG2376|consen  253 RN  254 (652)
T ss_pred             hc
Confidence            53

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=6.3e-05  Score=61.85  Aligned_cols=102  Identities=10%  Similarity=0.067  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHH--------HHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcch
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFR--------EMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ--QIRPSI  243 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~  243 (287)
                      ...-..+......|+++.|.+++.        .+.+.+..|.  +...++..+.+.++.+.|..++.+....  .-.+..
T Consensus       377 ~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s  454 (652)
T KOG2376|consen  377 VVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGS  454 (652)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccc
Confidence            344555666777889999998888        5555544444  4555677777777777777777776543  111222


Q ss_pred             Hh----HHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          244 YV----YRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       244 ~~----~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      ..    +.-++..-.+.|+.++|..+++++.+.+|++.
T Consensus       455 ~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~  492 (652)
T KOG2376|consen  455 IALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDT  492 (652)
T ss_pred             hHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchH
Confidence            22    33333334567999999999999988766554

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.73  E-value=8.7e-05  Score=61.75  Aligned_cols=273  Identities=9%  Similarity=0.123  Sum_probs=163.3

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-----------C
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-----------L   66 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----------~   66 (287)
                      |..+...|-..|+++.|..+|++..+-....-    .+|..-...=.+..+++.|++++++.....-+           +
T Consensus       390 w~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pv  469 (835)
T KOG2047|consen  390 WVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPV  469 (835)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcH
Confidence            56677888889999999999988766543321    34555555556677788888888776532111           1


Q ss_pred             ------CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh-
Q 023133           67 ------SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI-  139 (287)
Q Consensus        67 ------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-  139 (287)
                            +...|...+..--..|-++....+++++++..+- ++.+.-.....+-...-++++.++|++-...=-.|.+. 
T Consensus       470 Q~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~d  548 (835)
T KOG2047|consen  470 QARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYD  548 (835)
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHH
Confidence                  1124444555555667888888888888877643 33333334444555667888888888765543234433 


Q ss_pred             hHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH--HHhcCchHHHHHHHHHHhhCCCcCC--HHHHH
Q 023133          140 TYNIVLDILGR---VGRVNDMLNEFASMKEAGVVPDFISYNTLLNN--LRKIRRLDLCLIYFREMGESGIKPD--LLTYT  212 (287)
Q Consensus       140 ~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~  212 (287)
                      .|+.-+.-+.+   .-+++.|..+|++..+ |++|...-+..|+-+  --+-|-...|..++++.... +++.  ...|+
T Consensus       549 iW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~-v~~a~~l~myn  626 (835)
T KOG2047|consen  549 IWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSA-VKEAQRLDMYN  626 (835)
T ss_pred             HHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc-CCHHHHHHHHH
Confidence            56665555443   3368899999999988 666544322222221  22346677788888886543 2332  23567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhH---HHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVY---RSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      ..|.--...--+.....+|++.++.  -|+...-   -...+.=++.|..+.|..+|.-..+..+...++
T Consensus       627 i~I~kaae~yGv~~TR~iYekaIe~--Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~  694 (835)
T KOG2047|consen  627 IYIKKAAEIYGVPRTREIYEKAIES--LPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTT  694 (835)
T ss_pred             HHHHHHHHHhCCcccHHHHHHHHHh--CChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCCh
Confidence            6665544444445556677776664  3443332   222334456778888888877766554433333

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.70  E-value=1.6e-06  Score=60.25  Aligned_cols=116  Identities=13%  Similarity=0.088  Sum_probs=58.4

Q ss_pred             cCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc--HHHHHHHHHHHHhcCCHHH
Q 023133           46 TNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPES--IIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        46 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~  121 (287)
                      .++...+...++.+......-.  ....-.+...+...|++++|...|+.+......++  ....-.+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            5555555555555555421110  11222234555556666666666666655542222  1233334555666666666


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      |+..++.....  ......+.....+|.+.|++++|...|+.
T Consensus       104 Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            66666554322  22333445555666666666666666654

>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=98.67  E-value=2e-06  Score=69.03  Aligned_cols=126  Identities=16%  Similarity=0.197  Sum_probs=101.9

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..-..|+..+...++++.|+.+++++.+..  |+  ....+++.+...++..+|.+++++.++.. +.+...+......+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            445556667777889999999999998764  44  34457778878888889999999888765 56778888888889


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      .+.++++.|.++.+++.+.  .|+ -.+|..|..+|.+.|+++.|+..++.+.-
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            9999999999999999877  454 45899999999999999999999988753

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=1.3e-05  Score=64.86  Aligned_cols=227  Identities=15%  Similarity=0.108  Sum_probs=98.5

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHH-------H
Q 023133           37 NCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNR-------I  109 (287)
Q Consensus        37 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l  109 (287)
                      ..+.++..+..++..+++-+...++..  -+..-++....++...|.+.+.........+.|. ....-|+.       +
T Consensus       228 k~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~klIak~~~r~  304 (539)
T KOG0548|consen  228 KELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHHHHHHHHHHHh
Confidence            344555555555666666665555443  2333344444555555555555555544444431 11111111       2


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCch
Q 023133          110 IFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRL  189 (287)
Q Consensus       110 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  189 (287)
                      ..+|.+.++++.+...|.+.......|+..         .+....+++........-.+...- .-...=...+.+.|++
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~~l---------s~lk~~Ek~~k~~e~~a~~~pe~A-~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPDLL---------SKLKEAEKALKEAERKAYINPEKA-EEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHHHH---------HHHHHHHHHHHHHHHHHhhChhHH-HHHHHHHHHHHhccCH
Confidence            224444555666666665544322222221         112222333332222222111100 0011113334445555


Q ss_pred             HHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          190 DLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      ..|...|.++++.. +-|...|....-+|.+.|.+..|++-.+..++.. ++....|..=..++....+++.|++.|.+.
T Consensus       375 ~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~ea  452 (539)
T KOG0548|consen  375 PEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEA  452 (539)
T ss_pred             HHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555555543 3344555555555555555555555555444431 122223333333344444555555555555


Q ss_pred             hhcCCCCCC
Q 023133          270 NSSLSDLAG  278 (287)
Q Consensus       270 ~~~~~~~~~  278 (287)
                      +...|+...
T Consensus       453 le~dp~~~e  461 (539)
T KOG0548|consen  453 LELDPSNAE  461 (539)
T ss_pred             HhcCchhHH
Confidence            555544433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.67  E-value=2e-05  Score=57.98  Aligned_cols=189  Identities=13%  Similarity=0.107  Sum_probs=140.1

Q ss_pred             hcCChhHHHHHHHHHhhc---C-CCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133           11 KAGNVSAAVRLLQSLRDK---N-IFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~---~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      ...+.++..+++.++...   + ..++  ..|..++-+....|+.+.|...++++... .+-+...-..-.-.+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhch
Confidence            346788899998887643   3 2233  57777888888899999999999998876 332333332223335567999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ++|+++++.+++.+ |.|..++..-+......|+.-+|++-+....+. +..|...|.-+...|...|++++|.-.++++
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            99999999999887 677778877777777888888888888777654 3579999999999999999999999999999


Q ss_pred             HHcCCCCChhHHHHHHHHHHh---cCchHHHHHHHHHHhhCC
Q 023133          165 KEAGVVPDFISYNTLLNNLRK---IRRLDLCLIYFREMGESG  203 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~  203 (287)
                      .-..+. +...+..+...+.-   ..+...+.++|.+.++..
T Consensus       181 ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  181 LLIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            875322 44444444444333   446778999999988763

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.66  E-value=3.6e-05  Score=61.84  Aligned_cols=138  Identities=11%  Similarity=0.152  Sum_probs=83.8

Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-HhhHHHHHHHHHhcCCHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-LITYNIVLDILGRVGRVND  156 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~  156 (287)
                      ....++++.|+..++.++..- |.|+..+....+.+.+.++..+|.+.++++...  .|+ ....-.+..++.+.|++.+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            334566666666666666553 455566666666666777777777777666655  344 3344555666666777777


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          157 MLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       157 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      |+.+++....... -|...|..|.++|...|+..++..-..+                  .|...|+++.|...+....+
T Consensus       393 ai~~L~~~~~~~p-~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~~  453 (484)
T COG4783         393 AIRILNRYLFNDP-EDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRASQ  453 (484)
T ss_pred             HHHHHHHHhhcCC-CCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHHH
Confidence            7776666655533 2566677777777766666666554333                  23445666666666666655


Q ss_pred             C
Q 023133          237 Q  237 (287)
Q Consensus       237 ~  237 (287)
                      .
T Consensus       454 ~  454 (484)
T COG4783         454 Q  454 (484)
T ss_pred             h
Confidence            4

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=8.2e-06  Score=60.34  Aligned_cols=218  Identities=12%  Similarity=0.067  Sum_probs=142.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHH-HHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQ-ILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      +-++|...|++....   .+++... .++ .+...+.......++-+.-+. +.+.+......-+......-...|+..+
T Consensus        47 ~~raylAlg~~~~~~---~eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~  122 (299)
T KOG3081|consen   47 MYRAYLALGQYQIVI---SEIKEGK-ATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDG  122 (299)
T ss_pred             HHHHHHHcccccccc---ccccccc-CChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCC
Confidence            345666666655443   3444444 344 555555555555555554443 4444444433333333334456788999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh----cCCHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR----VGRVNDML  158 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  158 (287)
                      ++++|++..+..    -.......+  ...+.+..+++-|.+.+++|.+.   .+..|.+.|..++.+    .+.+.+|.
T Consensus       123 ~~deAl~~~~~~----~~lE~~Al~--VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAf  193 (299)
T KOG3081|consen  123 DFDEALKALHLG----ENLEAAALN--VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAF  193 (299)
T ss_pred             ChHHHHHHHhcc----chHHHHHHH--HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHH
Confidence            999999988762    122333333  34567888999999999999874   466677767666653    45789999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG-NIEESLRLFNDMKQQ  237 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~  237 (287)
                      -+|++|-++ ..|+..+.+-...++...|++++|..+++...... ..+..+...++-+-...| +.+...+.+.++...
T Consensus       194 yifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd-~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  194 YIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD-AKDPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc-CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            999999875 46788899999999999999999999999998775 334555544444444444 445566777777754

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.61  E-value=8.9e-06  Score=56.56  Aligned_cols=117  Identities=13%  Similarity=0.085  Sum_probs=63.8

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH--HHHHHHHHHHHhcCCHHH
Q 023133          151 VGRVNDMLNEFASMKEAGVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL--LTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~  226 (287)
                      .++...+...++.+.+....-.  ....-.+...+...|++++|...|+.+......|+.  .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            5666666666666655432210  122233445566666777777777666665322221  123345566666677777


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      |+..++.....  ......+....+.+...|++++|...|++.
T Consensus       104 Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77766553332  223344555666666777777777666653

>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=98.60  E-value=5e-06  Score=66.77  Aligned_cols=126  Identities=12%  Similarity=0.195  Sum_probs=91.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL  183 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  183 (287)
                      .....|+..+...++++.|..+|+++.+.  .|+  ....++..+...++-.+|.+++++..+.... +...+..-...+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~--~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~-d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER--DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQ-DSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc--CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHH
Confidence            34445666666778888888888888765  344  3345677777777888888888887765322 556666666677


Q ss_pred             HhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       184 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .+.++.+.|..+.+++.+.. +-+..+|..|..+|...|+++.|+..++.+.
T Consensus       245 l~k~~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            88888888888888888762 3344588888888888888888888887764

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=8.5e-05  Score=64.98  Aligned_cols=235  Identities=14%  Similarity=0.138  Sum_probs=144.0

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCC-CCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNI-FLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      ..+.++...+-..+-+++++++.-.+. .+. .....|+-.-+-.-+..++.+..+++..-. .|+      +...+...
T Consensus       989 ~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyD-a~~------ia~iai~~ 1061 (1666)
T KOG0985|consen  989 VTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYD-APD------IAEIAIEN 1061 (1666)
T ss_pred             HHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCC-chh------HHHHHhhh
Confidence            456778888888888888888754433 333 333333333333445566666666664332 122      22333444


Q ss_pred             CChHHHHHHHHHHHhcC---------------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh
Q 023133           82 DDCTQLLIFIEEVVQIA---------------------SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT  140 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~---------------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  140 (287)
                      +-+++|..+|++....+                     --..+.+|..+..+-.+.|.+.+|++-|-+.      .|...
T Consensus      1062 ~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~ 1135 (1666)
T KOG0985|consen 1062 QLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSN 1135 (1666)
T ss_pred             hHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHH
Confidence            44555555554321100                     0123567777888888888888887776553      36667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      |..++....+.|.|++-.+++...++....|...  +.++-+|++.++..+..+++.       .||......+.+-|..
T Consensus      1136 y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~ 1206 (1666)
T KOG0985|consen 1136 YLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFE 1206 (1666)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhh
Confidence            8888888888888888888887777766655544  567778888887776655442       4666666666777777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          221 TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .|.++.|.-+|..         +..|..|...+...|++..|.+.-+++
T Consensus      1207 ~~~y~aAkl~y~~---------vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1207 EKMYEAAKLLYSN---------VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             hhhhHHHHHHHHH---------hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            7777766665543         334555666666666666665554444

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.58  E-value=3.9e-06  Score=67.74  Aligned_cols=124  Identities=12%  Similarity=0.042  Sum_probs=100.3

Q ss_pred             cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh
Q 023133           63 SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQI--ASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT  140 (287)
Q Consensus        63 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  140 (287)
                      +.+.+......++..+....+.+.+..++.+....  ....-..+.+++++.|.+.|..++++.++..=...|+-||..+
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            45566777888888888888899999988888755  2223344557899999999999999999999889999999999


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI  186 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  186 (287)
                      +|.|+..+.+.|++..|.++...|...+...+..|+..-+.+|.+-
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            9999999999999999999999987777666777777666666655

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 [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.57  E-value=1.5e-07  Score=47.77  Aligned_cols=33  Identities=45%  Similarity=0.757  Sum_probs=18.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD  172 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  172 (287)
                      +||+++.+|++.|++++|.++|++|.+.|+.||
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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.52  E-value=2.3e-07  Score=47.07  Aligned_cols=33  Identities=42%  Similarity=0.827  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666655

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.52  E-value=0.00022  Score=55.06  Aligned_cols=227  Identities=10%  Similarity=0.092  Sum_probs=172.3

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCc---hhHH------------HHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYN------------CVLVASAETNDIDLSFQILKDLLVSSRTLSSDCY   71 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~   71 (287)
                      ..+.+.|.+++|..=|+.+..+++...   +++.            ..+..+.-.|+...|+.....+++.. +-+...+
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHH
Confidence            357789999999999999998876433   2322            23345566789999999999998753 4477788


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh----HHHH---
Q 023133           72 TNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT----YNIV---  144 (287)
Q Consensus        72 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l---  144 (287)
                      ..-..+|...|++..|+.-++...+.. ..+...+.-+-..+...|+.+.++...++-.+.  .||...    |..|   
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHH
Confidence            888899999999999999998887776 455566666788889999999999999998876  466542    2111   


Q ss_pred             ------HHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          145 ------LDILGRVGRVNDMLNEFASMKEAGVVPDF---ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       145 ------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                            +......++|.++.+-.+...+.......   ..+..+-.++...+++.+|++...+.++.. +.|+.++.--.
T Consensus       270 ~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  270 VKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID-PDDVQVLCDRA  348 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC-chHHHHHHHHH
Confidence                  12345678888888888887776433222   334556677778899999999999998763 33477888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC
Q 023133          216 DSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      .+|.-...++.|+.-|+...+.+
T Consensus       349 eA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  349 EAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHhhhHHHHHHHHHHHHHHhcC
Confidence            99999999999999999988753

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.50  E-value=0.00058  Score=59.08  Aligned_cols=224  Identities=13%  Similarity=0.053  Sum_probs=149.9

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHH--HhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVA--SAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQ   86 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   86 (287)
                      ....+++.+|....+.+.+..+..  .|..++.+  ..+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++
T Consensus        19 ~ld~~qfkkal~~~~kllkk~Pn~--~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKKHPNA--LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHHCCCc--HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            456788899999999988877554  45555554  46889999999888887655433 78888888899999999999


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC-C---------HHH
Q 023133           87 LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG-R---------VND  156 (287)
Q Consensus        87 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~  156 (287)
                      |..++++.....  |+......+..+|.+.+.+.+-.++--++-+. ++.....+=.+++.+.+.- .         ..-
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            999999998764  55777777888899988887655554444432 1233444444444443221 1         234


Q ss_pred             HHHHHHHHHHcC-CCCChhHHHHHHHHHHhcCchHHHHHHH-HHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          157 MLNEFASMKEAG-VVPDFISYNTLLNNLRKIRRLDLCLIYF-REMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       157 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      |.+.++.+.+.+ ..-+..-...-...+...|++++|.+++ ....+.-..-+...-+.-+..+...+++.+..++-.++
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            555666665543 2222222223334455678899999998 34444333444555556677888888888888888888


Q ss_pred             HhCC
Q 023133          235 KQQQ  238 (287)
Q Consensus       235 ~~~~  238 (287)
                      ...|
T Consensus       253 l~k~  256 (932)
T KOG2053|consen  253 LEKG  256 (932)
T ss_pred             HHhC
Confidence            8765

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.49  E-value=7e-06  Score=54.88  Aligned_cols=104  Identities=10%  Similarity=0.023  Sum_probs=66.9

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCC--cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CcchHhHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGI--KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI--RPSIYVYRSLI  250 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~li  250 (287)
                      ++..+...+.+.|++++|.+.+..+.+...  ......+..+..++.+.|++++|.+.|+.+.....  +.....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445566666777777777777777765421  11133455577777777777778777777765321  11234566666


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          251 DNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .++.+.|++++|.+.++++....|+.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~  111 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSA  111 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChh
Confidence            7777778888888888887777776543

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.49  E-value=3.2e-07  Score=46.22  Aligned_cols=32  Identities=41%  Similarity=0.637  Sum_probs=15.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVP  171 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  171 (287)
                      +|+.++.+|++.|+++.|..+|+.|.+.|++|
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            44444444444444444444444444444443

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.48  E-value=5.8e-06  Score=52.46  Aligned_cols=97  Identities=21%  Similarity=0.208  Sum_probs=57.4

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      +..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.++...+.. +.+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHH
Confidence            3444555556666666666666665542 2233455556666666666777777666666542 2233456666666666


Q ss_pred             cCChHHHHHHHHHHhhcCC
Q 023133          256 MGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~  274 (287)
                      .|++++|...+.+..+..|
T Consensus        81 ~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          81 LGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHhHHHHHHHHHHHHccCC
Confidence            6777777777766655544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.48  E-value=5.9e-05  Score=64.55  Aligned_cols=52  Identities=12%  Similarity=0.171  Sum_probs=33.8

Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .+++..|-.|+.++|.++-++      .-|....-.|...|...|++.+|..+|.+..
T Consensus       943 s~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            344444445555555554433      2255556678889999999999998887764

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.48  E-value=7.9e-05  Score=65.72  Aligned_cols=229  Identities=10%  Similarity=0.058  Sum_probs=155.9

Q ss_pred             HhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH-HHHHHHHHHhccCChHHHHHHHHHHHhcCCCC
Q 023133           25 LRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD-CYTNFARAFIMTDDCTQLLIFIEEVVQIASPE  101 (287)
Q Consensus        25 ~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  101 (287)
                      ..-.+..|.  .++..|+..+...+++++|.++.+..++.  .|+.. .|..+...+.+.++...+..+           
T Consensus        21 ~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------   87 (906)
T PRK14720         21 ADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------   87 (906)
T ss_pred             cccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------
Confidence            334455555  78999999999999999999999977764  44433 333333355555553333222           


Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          102 SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       102 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                            .+++......++..+..+...+.+.  .-+...+..+..+|-+.|+.++|..+++++.+.... |..+.|.+..
T Consensus        88 ------~~l~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~-n~~aLNn~AY  158 (906)
T PRK14720         88 ------NLIDSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRD-NPEIVKKLAT  158 (906)
T ss_pred             ------hhhhhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcc-cHHHHHHHHH
Confidence                  4555555666665555555666654  235557888999999999999999999999998744 8889999999


Q ss_pred             HHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHH---H--HHhcCCHHHHHHHHHHHHhC-CCCcchHhHHHHHHHHHh
Q 023133          182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALID---S--FGRTGNIEESLRLFNDMKQQ-QIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       182 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~---~--~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~  255 (287)
                      .|... ++++|.+++.+.++.-  .+..-|+.+..   -  .....+++.-.++.+.+... |..--+.++..+-..|..
T Consensus       159 ~~ae~-dL~KA~~m~~KAV~~~--i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~  235 (906)
T PRK14720        159 SYEEE-DKEKAITYLKKAIYRF--IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKA  235 (906)
T ss_pred             HHHHh-hHHHHHHHHHHHHHHH--HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhh
Confidence            99999 9999999999887641  11112222211   1  11233444555555555533 333345566666778888


Q ss_pred             cCChHHHHHHHHHHhhcCCCCCC
Q 023133          256 MGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .++|+++..+++.+.+..|.+..
T Consensus       236 ~~~~~~~i~iLK~iL~~~~~n~~  258 (906)
T PRK14720        236 LEDWDEVIYILKKILEHDNKNNK  258 (906)
T ss_pred             hhhhhHHHHHHHHHHhcCCcchh
Confidence            89999999999999998886543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.48  E-value=1e-05  Score=54.10  Aligned_cols=98  Identities=11%  Similarity=0.071  Sum_probs=55.0

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCC--CCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCC--CcHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRT--LSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASP--ESIIVVNRII  110 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  110 (287)
                      ++..++..+.+.|++++|...+..+......  .....+..+..++.+.|+++.|...++.+......  ....++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455555566666666666666666543211  11234444556666666666666666666554311  1234455566


Q ss_pred             HHHHhcCCHHHHHHHHHHHhcC
Q 023133          111 FAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .++.+.|++++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6666666666666666666554

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.47  E-value=6.6e-06  Score=66.45  Aligned_cols=125  Identities=13%  Similarity=0.073  Sum_probs=103.2

Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC--CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh
Q 023133           97 IASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL--KCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFI  174 (287)
Q Consensus        97 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  174 (287)
                      .+.+.+......+++.+....+++.+..++.+....  ....-..|..++++.|.+.|..++++.++..=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            344667777888888888888999999999988765  111223355799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT  221 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  221 (287)
                      +++.++..+.+.|++..|.++...|...+...+..|+..-+.+|.+-
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998776666777776666666554

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 [].

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.46  E-value=6.1e-06  Score=66.27  Aligned_cols=102  Identities=7%  Similarity=-0.080  Sum_probs=78.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      ...+...|++++|+..|++..+.... +...|..+..+|.+.|++++|...++++++.. +.+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~-~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPN-NAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            45566788999999999998876543 66778888888889999999999999888764 34666788888888899999


Q ss_pred             HHHHHHHHHHHhCCCCcchHhHHHHH
Q 023133          225 EESLRLFNDMKQQQIRPSIYVYRSLI  250 (287)
Q Consensus       225 ~~a~~~~~~~~~~~~~~~~~~~~~li  250 (287)
                      ++|...|++..+.  .|+......++
T Consensus        87 ~eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         87 QTAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            9999999988874  45544444443

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.46  E-value=4.5e-07  Score=45.66  Aligned_cols=33  Identities=36%  Similarity=0.784  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      .+|+.++.+|++.|+++.|.++|++|.+.|+.|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            355666666666666666666666666555554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.46  E-value=2.6e-05  Score=66.62  Aligned_cols=230  Identities=13%  Similarity=0.139  Sum_probs=153.5

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh---------cCCCCHHHHHHHHHHHh
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS---------SRTLSSDCYTNFARAFI   79 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~~~~~l~~~~~   79 (287)
                      |...|+.|.|.+-.+.++...     .|..+.+.|.+..+.+-|.-.+..|...         .-.|+ .+=..+.....
T Consensus       738 yvtiG~MD~AfksI~~IkS~~-----vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAi  811 (1416)
T KOG3617|consen  738 YVTIGSMDAAFKSIQFIKSDS-----VWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAI  811 (1416)
T ss_pred             EEEeccHHHHHHHHHHHhhhH-----HHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHH
Confidence            556788899888887776443     7999999999998888877666665321         11222 22223344456


Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLN  159 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  159 (287)
                      ..|.+++|+.++++-.+.         ..|=..|-..|.|++|.++-+.-.+..   =..||..-..-+-..++.+.|++
T Consensus       812 eLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiH---Lr~Tyy~yA~~Lear~Di~~Ale  879 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIH---LRNTYYNYAKYLEARRDIEAALE  879 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhcccee---hhhhHHHHHHHHHhhccHHHHHH
Confidence            778999999998876553         234455777899999998876543322   22355555566666777888887


Q ss_pred             HHHHHH----------HcC---------CCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          160 EFASMK----------EAG---------VVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       160 ~~~~~~----------~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      .|++..          ...         -..|...|......+-..|+.+.|+.+|....+         |-.++...+-
T Consensus       880 yyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~  950 (1416)
T KOG3617|consen  880 YYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCI  950 (1416)
T ss_pred             HHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEee
Confidence            776521          111         112445566666666677778888777776542         4456666677


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          221 TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      .|+.++|-++-++-      -|......+...|-..|++.+|..+|.++..
T Consensus       951 qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa  995 (1416)
T KOG3617|consen  951 QGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTRAQA  995 (1416)
T ss_pred             ccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence            78888888776542      2566667788889999999999998887743

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.45  E-value=0.00052  Score=56.18  Aligned_cols=133  Identities=8%  Similarity=0.107  Sum_probs=99.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSF  218 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  218 (287)
                      +|...+..-.+..-+..|..+|.++.+.+..+ .+...++++..+| .++..-|.++|+--.+.- .-+..-....++-+
T Consensus       368 v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf-~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  368 VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF-GDSPEYVLKYLDFL  445 (656)
T ss_pred             ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc-CCChHHHHHHHHHH
Confidence            34555666667777888888888888887776 6677778887665 677788888887765441 22334445667777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcc--hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          219 GRTGNIEESLRLFNDMKQQQIRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       219 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      ...++-..+..+|++....++.|+  ...|..++.-=..-|+...+.++-+++....|
T Consensus       446 ~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            788888889999999888766655  46888898888888999999988888877666

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.40  E-value=1.9e-05  Score=61.28  Aligned_cols=130  Identities=13%  Similarity=0.093  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI-LGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      .+|-.++....+.+..+.|..+|.+..+.+ ..+...|...... +...++.+.|..+|+...+. ...+...|...+..
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            356666666666666777777776666432 1223333333333 22244555566777666554 23355556666666


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPD---LLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +.+.++.+.|..+|++.... +.++   ...|...+..=.+.|+.+.+.++.+++.+
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666654 1221   13566666666666666666666666655

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.38  E-value=0.00014  Score=55.04  Aligned_cols=182  Identities=7%  Similarity=-0.005  Sum_probs=112.5

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHH---HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDC---YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRII  110 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  110 (287)
                      ..+......+.+.|++++|.+.|+++...-..+ ...   .-.++.++.+.+++++|...+++.++..+.....-+...+
T Consensus        33 ~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         33 SEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            344455666678999999999999998763322 222   2456788899999999999999998876433223333333


Q ss_pred             HHHHh--cC---------------C---HHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 023133          111 FAFAK--SR---------------Q---IEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV  170 (287)
Q Consensus       111 ~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  170 (287)
                      .+.+.  .+               +   ..+|+..|+++.+.  -|+.             .-..+|...+..+.+.   
T Consensus       112 ~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A~~rl~~l~~~---  173 (243)
T PRK10866        112 RGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDATKRLVFLKDR---  173 (243)
T ss_pred             HHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHHHHHHHHHHHH---
Confidence            33321  11               1   23444555555543  2333             3345555544444332   


Q ss_pred             CChhHHHHHHHHHHhcCchHHHHHHHHHHhhC--CCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          171 PDFISYNTLLNNLRKIRRLDLCLIYFREMGES--GIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .-..- -.+..-|.+.|.+..|..-++.+.+.  +.+........++.+|...|..++|.++...+.
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 24666678888888888888888764  223334566677888888888888887776554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.37  E-value=2.4e-05  Score=53.84  Aligned_cols=96  Identities=8%  Similarity=-0.026  Sum_probs=61.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                      ....+...+...|++++|..+|+.+...... +..-|..|..++...|++++|+..|....... +-|...+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            3444555556677777777777776655433 45555666666666777777777777766654 345566666677777


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 023133          220 RTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~  237 (287)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777777766543

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.37  E-value=1.5e-05  Score=50.47  Aligned_cols=20  Identities=25%  Similarity=0.316  Sum_probs=7.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 023133          109 IIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~  128 (287)
                      +...+...+++++|.+.++.
T Consensus        40 ~~~~~~~~~~~~~a~~~~~~   59 (100)
T cd00189          40 LAAAYYKLGKYEEALEDYEK   59 (100)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            33333333333333333333

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.37  E-value=0.00043  Score=60.83  Aligned_cols=211  Identities=12%  Similarity=0.100  Sum_probs=119.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..|..+..+-.+.|...+|++-|-+.      -|+..|..++..+.+.|.+++..+++....+...+|.+.  ..|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            57888888888888887777666432      356778888888888888888888888777766555443  5677788


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------------------CCCCh
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG--------------------VVPDF  173 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~  173 (287)
                      ++.++..+.++++.       -|+......+.+-|...|.++.|.-+|.......                    -..+.
T Consensus      1177 Akt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ 1249 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANST 1249 (1666)
T ss_pred             HHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccch
Confidence            88888877666542       2555555555555555555555554443321100                    00133


Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHH
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      .||..+..+|...+.+.-|     +|...++-....-..-|+.-|-..|-+++.+.+++...... +...-.|+-|.-.|
T Consensus      1250 ktWK~VcfaCvd~~EFrlA-----QiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLE-RAHMgmfTELaiLY 1323 (1666)
T KOG0985|consen 1250 KTWKEVCFACVDKEEFRLA-----QICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLE-RAHMGMFTELAILY 1323 (1666)
T ss_pred             hHHHHHHHHHhchhhhhHH-----HhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchh-HHHHHHHHHHHHHH
Confidence            4444444444443333222     12222222333345556777777777777777766554210 12233455555445


Q ss_pred             HhcCChHHHHHHH
Q 023133          254 KKMGKVDLAMTIF  266 (287)
Q Consensus       254 ~~~g~~~~a~~~~  266 (287)
                      .+- ++++.++-+
T Consensus      1324 sky-kp~km~EHl 1335 (1666)
T KOG0985|consen 1324 SKY-KPEKMMEHL 1335 (1666)
T ss_pred             Hhc-CHHHHHHHH
Confidence            443 244444433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.36  E-value=0.00022  Score=62.31  Aligned_cols=183  Identities=11%  Similarity=0.068  Sum_probs=126.8

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ...+...|-+..+.. +.-...|..|...|....+...|.+.|+...+.. ..|...+......|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld-~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLD-VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            566666666665554 2345678888888888888888999998888765 45667788888999999999999888333


Q ss_pred             HHHcCCC-CChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          164 MKEAGVV-PDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       164 ~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      .-+.... .-...|....-.|.+.++...+..-|+...... +.|...|..+..+|...|++..|.++|.+....  +|+
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~  628 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPL  628 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcH
Confidence            2222110 011223334445677888888888888887664 456778888999999999999999999888763  454


Q ss_pred             hHhHHHHH--HHHHhcCChHHHHHHHHHHhhc
Q 023133          243 IYVYRSLI--DNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       243 ~~~~~~li--~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      .. |...-  -..+..|.+++|...+..+...
T Consensus       629 s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  629 SK-YGRFKEAVMECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             hH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            32 22222  2345678888888888777443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.35  E-value=0.00012  Score=61.54  Aligned_cols=145  Identities=9%  Similarity=-0.083  Sum_probs=103.3

Q ss_pred             CCCCHhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC--------chHHHHHHHHHHh
Q 023133          134 CKPDLITYNIVLDILGRV-----GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR--------RLDLCLIYFREMG  200 (287)
Q Consensus       134 ~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~  200 (287)
                      .+.+...|...+.+....     +..+.|..+|++..+.... ....|..+..++....        +...+.+...+..
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            356778888888875432     2377899999999886432 3344554433332221        2234444444433


Q ss_pred             hC-CCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          201 ES-GIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       201 ~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      .. ....+...|..+.-.....|++++|...+++..+.  .|+...|..+...+...|+.++|.+.++++....|..|+.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~  489 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTL  489 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchH
Confidence            32 12445577887777777789999999999999986  4788899999999999999999999999999999988864


Q ss_pred             hh
Q 023133          280 KD  281 (287)
Q Consensus       280 ~~  281 (287)
                      --
T Consensus       490 ~~  491 (517)
T PRK10153        490 YW  491 (517)
T ss_pred             HH
Confidence            33

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.35  E-value=6.2e-05  Score=54.00  Aligned_cols=89  Identities=10%  Similarity=0.145  Sum_probs=58.5

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIF  111 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  111 (287)
                      ..+..+...+...|++++|...|++.......+.  ...+..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~  114 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            4566677777777888888888877765433322  3456667777777788888887777777654 344556666666


Q ss_pred             HHHhcCCHHHHH
Q 023133          112 AFAKSRQIEKAL  123 (287)
Q Consensus       112 ~~~~~~~~~~a~  123 (287)
                      .+...|+...+.
T Consensus       115 ~~~~~g~~~~a~  126 (172)
T PRK02603        115 IYHKRGEKAEEA  126 (172)
T ss_pred             HHHHcCChHhHh
Confidence            666666644433

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.35  E-value=1.8e-05  Score=50.67  Aligned_cols=73  Identities=22%  Similarity=0.318  Sum_probs=36.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCC-CCChhHHHHHHHHHHhcC--------chHHHHHHHHHHhhCCCcCCHHHHHHHHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGV-VPDFISYNTLLNNLRKIR--------RLDLCLIYFREMGESGIKPDLLTYTALIDS  217 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  217 (287)
                      .+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-....+|+.|...+++|+..+|+.++..
T Consensus        34 ~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~  113 (120)
T PF08579_consen   34 SCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGS  113 (120)
T ss_pred             HHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHH
Confidence            33344555555555555555555 555555555555544322        122344455555555555555555555554


Q ss_pred             HH
Q 023133          218 FG  219 (287)
Q Consensus       218 ~~  219 (287)
                      +.
T Consensus       114 Ll  115 (120)
T PF08579_consen  114 LL  115 (120)
T ss_pred             HH
Confidence            43

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 [, , ].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.34  E-value=7.1e-07  Score=43.83  Aligned_cols=29  Identities=24%  Similarity=0.582  Sum_probs=23.8

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcC
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKN   29 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~   29 (287)
                      +||.||++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            58888888888888888888888887766

Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.33  E-value=2.1e-05  Score=50.31  Aligned_cols=78  Identities=18%  Similarity=0.287  Sum_probs=57.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCHhhHHHHHHHHHhcC--------CHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133          108 RIIFAFAKSRQIEKALLIFDHIKGLKC-KPDLITYNIVLDILGRVG--------RVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus       108 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-..+.+|+.|...+++|+..+|+.
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            344445555778888888888888877 778888888877766543        24466778888888889999999998


Q ss_pred             HHHHHHh
Q 023133          179 LLNNLRK  185 (287)
Q Consensus       179 l~~~~~~  185 (287)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8887654

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 [, , ].

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.32  E-value=0.00019  Score=62.75  Aligned_cols=215  Identities=12%  Similarity=0.041  Sum_probs=146.3

Q ss_pred             hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           49 IDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus        49 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  128 (287)
                      ...++..|-+..+.. +.-...|..|...|....+...|.+.|++..+.+ +.+...+....+.|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld-~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLD-VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcc-cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            444555544444322 1124567788888888888999999999999887 67888899999999999999999998544


Q ss_pred             HhcCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcC
Q 023133          129 IKGLKCKPDL--ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKP  206 (287)
Q Consensus       129 ~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  206 (287)
                      ..+.. +.-.  ..|....-.|...++...|..-|+......++ |...|..+..+|...|....|.++|.+....  +|
T Consensus       552 ~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP  627 (1238)
T KOG1127|consen  552 AAQKA-PAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--RP  627 (1238)
T ss_pred             Hhhhc-hHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--Cc
Confidence            33321 1112  23333444567888899999999988776654 7889999999999999999999999888765  45


Q ss_pred             CHHHHHHH--HHHHHhcCCHHHHHHHHHHHHhC------CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 023133          207 DLLTYTAL--IDSFGRTGNIEESLRLFNDMKQQ------QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       207 ~~~~~~~l--~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (287)
                      +. +|...  .-..+..|.+.+|...+......      +..--..++-.+...+...|-...|.+++++..
T Consensus       628 ~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  628 LS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             Hh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            43 33322  23345678999999888877632      222233444444445555565556666665543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.29  E-value=5.4e-06  Score=48.81  Aligned_cols=63  Identities=19%  Similarity=0.220  Sum_probs=49.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          214 LIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       214 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +...+...|++++|.+.|+++++.. +-+...+..+..++...|++++|..+|+++.+..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            4566778888899999998888764 34677888888888888999999999988888888754

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.29  E-value=3.7e-06  Score=52.41  Aligned_cols=20  Identities=10%  Similarity=0.296  Sum_probs=8.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHH
Q 023133          109 IIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~  128 (287)
                      +..+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            33344444444444444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.29  E-value=0.00018  Score=61.06  Aligned_cols=165  Identities=14%  Similarity=0.159  Sum_probs=71.3

Q ss_pred             hhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 023133           44 AETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL  123 (287)
Q Consensus        44 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  123 (287)
                      .....|.+|+.+++.++..+  .-...|..+..-|+..|+++.|.++|-+.         ..++-.|.+|.+.|+|+.|.
T Consensus       743 i~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHH
Confidence            33444555555555444332  12233444445555555555555554321         12334455555555555555


Q ss_pred             HHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      ++-.+...  .......|-+-..-+-+.|++.+|.+++-....    |+     ..|..|-+.|..+..+++..+-... 
T Consensus       812 kla~e~~~--~e~t~~~yiakaedldehgkf~eaeqlyiti~~----p~-----~aiqmydk~~~~ddmirlv~k~h~d-  879 (1636)
T KOG3616|consen  812 KLAEECHG--PEATISLYIAKAEDLDEHGKFAEAEQLYITIGE----PD-----KAIQMYDKHGLDDDMIRLVEKHHGD-  879 (1636)
T ss_pred             HHHHHhcC--chhHHHHHHHhHHhHHhhcchhhhhheeEEccC----ch-----HHHHHHHhhCcchHHHHHHHHhChh-
Confidence            55444331  122223333333334444555555444322211    22     2344444445444444444332211 


Q ss_pred             CcCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          204 IKPDLLTYTALIDSFGRTGNIEESLRLFND  233 (287)
Q Consensus       204 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  233 (287)
                        .-..|...+..-|...|++..|..-|-+
T Consensus       880 --~l~dt~~~f~~e~e~~g~lkaae~~fle  907 (1636)
T KOG3616|consen  880 --HLHDTHKHFAKELEAEGDLKAAEEHFLE  907 (1636)
T ss_pred             --hhhHHHHHHHHHHHhccChhHHHHHHHh
Confidence              1112344445555555666665555433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.26  E-value=0.00031  Score=59.73  Aligned_cols=137  Identities=18%  Similarity=0.225  Sum_probs=75.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchH
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  190 (287)
                      .+.....+|.+|+.+++.+....  .-..-|..+...|+..|+++.|.++|-+.-         .++-.|..|.+.|+|+
T Consensus       740 eaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  740 EAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHH
Confidence            33444556666666666555431  222334555566666666666666664421         2344556666667776


Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .|.++-.+....  ......|-.-..-+-..|++.+|.+++-..-    .|+     ..|..|-+.|..+..+++.++-
T Consensus       809 da~kla~e~~~~--e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  809 DAFKLAEECHGP--EATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHhcCc--hhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            666665554321  3334445555555566666666666654322    232     2455666777777766666554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.26  E-value=4.7e-05  Score=59.08  Aligned_cols=128  Identities=13%  Similarity=0.128  Sum_probs=58.4

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHH-HhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVA-SAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      |-.+|...-+.+..+.|..+|.+..+.+....+.|...... +...++.+.|..+|+...+. .+.+...|...+..+..
T Consensus         4 ~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~   82 (280)
T PF05843_consen    4 WIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIK   82 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHH
Confidence            44555555555555555555555553332222333333333 22234444455555555543 33344445555555555


Q ss_pred             cCChHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           81 TDDCTQLLIFIEEVVQIASPES---IIVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      .++.+.|..+|++.+.. ++++   ..+|...++.=.+.|+++.+.++.+++.+
T Consensus        83 ~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~  135 (280)
T PF05843_consen   83 LNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE  135 (280)
T ss_dssp             TT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred             hCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555443 1111   13555555555555555555555554443

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.24  E-value=4.5e-06  Score=52.00  Aligned_cols=80  Identities=19%  Similarity=0.272  Sum_probs=32.8

Q ss_pred             CchHHHHHHHHHHhhCCCc-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHH
Q 023133          187 RRLDLCLIYFREMGESGIK-PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                      |+++.|..+++++.+.... ++...+..+..+|.+.|++++|..+++. .+.+ ..+......+..++.+.|++++|.++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~-~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD-PSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH-HCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC-CCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4445555555555443210 1222233345555555555555555544 2111 11122223334445555555555555


Q ss_pred             HHH
Q 023133          266 FEE  268 (287)
Q Consensus       266 ~~~  268 (287)
                      |++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            543

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.24  E-value=2e-06  Score=42.16  Aligned_cols=28  Identities=29%  Similarity=0.551  Sum_probs=12.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      +|+.++++|++.|++++|.++|++|.+.
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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.22  E-value=9.6e-05  Score=52.81  Aligned_cols=80  Identities=10%  Similarity=0.011  Sum_probs=45.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL--SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIF  111 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  111 (287)
                      ..|..+...+...|++++|+..|++.......+  ...++..+..++...|++++|...+++..+.. +.....+..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            455666666666677777777776665442222  12355556666666677777776666666543 333344444554


Q ss_pred             HHH
Q 023133          112 AFA  114 (287)
Q Consensus       112 ~~~  114 (287)
                      .+.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.21  E-value=0.00018  Score=56.10  Aligned_cols=197  Identities=12%  Similarity=0.158  Sum_probs=115.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhc----CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCCCHh
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQI----ASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKG----LKCKPDLI  139 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~  139 (287)
                      ..|......|...+++++|...|.+..+.    +-+ .-...|.....+|.+ .++++|...+++..+    .| .|+..
T Consensus        36 ~~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~~y~~~G-~~~~a  113 (282)
T PF14938_consen   36 DLYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIEIYREAG-RFSQA  113 (282)
T ss_dssp             HHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHHHCT--HHHH
T ss_pred             HHHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHHHHHhcC-cHHHH
Confidence            45677777788888999998888776432    211 122345555555544 488888888877643    34 33332


Q ss_pred             --hHHHHHHHHHhc-CCHHHHHHHHHHHHHc----CCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc-----
Q 023133          140 --TYNIVLDILGRV-GRVNDMLNEFASMKEA----GVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGESGIK-----  205 (287)
Q Consensus       140 --~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----  205 (287)
                        .+..+...|... |++++|++.|++..+.    + .+.  ..++..+...+.+.|++++|.++|+++......     
T Consensus       114 A~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~  192 (282)
T PF14938_consen  114 AKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLK  192 (282)
T ss_dssp             HHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTG
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccc
Confidence              566677777777 8888888888886442    2 111  245566777788888888888888887654222     


Q ss_pred             CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcc--hHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          206 PDLL-TYTALIDSFGRTGNIEESLRLFNDMKQQ--QIRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       206 ~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .+.. .|...+-++...||...|.+.+++....  ++..+  ......|+.++ +.|+.+...+.+.+-
T Consensus       193 ~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~-~~~D~e~f~~av~~~  260 (282)
T PF14938_consen  193 YSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAY-EEGDVEAFTEAVAEY  260 (282)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHH-HTT-CCCHHHHCHHH
T ss_pred             hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHH-HhCCHHHHHHHHHHH
Confidence            2222 2333344566678888888888887754  22222  23445555554 556655544444444

>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=98.21  E-value=7.6e-05  Score=53.94  Aligned_cols=51  Identities=14%  Similarity=0.260  Sum_probs=33.4

Q ss_pred             CCcHHHHHHHHHHHHh-----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133          100 PESIIVVNRIIFAFAK-----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      ..+..+|..+++.|.+     .|..+-....+..|.+.|+..|..+|+.|++.+=+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            3455666666666654     35666666677777777777777777777766543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=98.21  E-value=0.0012  Score=50.08  Aligned_cols=177  Identities=9%  Similarity=0.076  Sum_probs=100.3

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHH---HHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVV---NRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      ....+...|++++|.+.|+++....+ .+...-   -.++.++.+.+++++|...+++..+........-+...+.+.+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP-~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYP-FGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            44445566777777777777766542 222222   34556677777777777777777665211111222222222221


Q ss_pred             --cC---------------C---HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH
Q 023133          151 --VG---------------R---VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT  210 (287)
Q Consensus       151 --~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  210 (287)
                        .+               +   ..+|+..               +..++.-|-...-..+|...+..+...   .- ..
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~---------------~~~li~~yP~S~ya~~A~~rl~~l~~~---la-~~  177 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRD---------------FSKLVRGYPNSQYTTDATKRLVFLKDR---LA-KY  177 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHH---------------HHHHHHHCcCChhHHHHHHHHHHHHHH---HH-HH
Confidence              10               0   1122222               233333333333344444444443321   00 11


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC--CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQ--QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (287)
                      --.+..-|.+.|.+..|..-++.+++.  +.+........++.+|...|..++|..+...+.
T Consensus       178 e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        178 ELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            114566788999999999999999875  333445667788899999999999999887664

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.20  E-value=0.0032  Score=54.74  Aligned_cols=226  Identities=9%  Similarity=0.108  Sum_probs=150.8

Q ss_pred             hhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHH--hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           44 AETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAF--IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        44 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      ...+++..|+.-...+.+.  .|+.. |..++.++  .+.|+.++|..+++.....+ ..|..+...+-..|...++.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhhH
Confidence            3567889999999988875  34433 44445554  58899999998888887766 3588999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC-c---------hHH
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR-R---------LDL  191 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~---------~~~  191 (287)
                      |..+|++..+.  .|+......+..+|.+.+.+.+-.+.--+|-+. .+-+...|=.+++.+.... .         ..-
T Consensus        96 ~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~L  172 (932)
T KOG2053|consen   96 AVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLAL  172 (932)
T ss_pred             HHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHH
Confidence            99999999876  577778888888999988877655544444332 1123333333444333321 1         224


Q ss_pred             HHHHHHHHhhCC-CcCCHHHHHHHHHHHHhcCCHHHHHHHHH-HHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          192 CLIYFREMGESG-IKPDLLTYTALIDSFGRTGNIEESLRLFN-DMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       192 a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      |.+.++.+.+.+ .--+..-...-...+...|++++|.+++. ...+.-..-+...-+.-+..+...++|.+..++-.++
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            666677776543 22222223333445667899999999994 4444433333444445566677788888888888888


Q ss_pred             hhcCCCC
Q 023133          270 NSSLSDL  276 (287)
Q Consensus       270 ~~~~~~~  276 (287)
                      ....+|+
T Consensus       253 l~k~~Dd  259 (932)
T KOG2053|consen  253 LEKGNDD  259 (932)
T ss_pred             HHhCCcc
Confidence            7777765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.20  E-value=9.1e-05  Score=59.62  Aligned_cols=92  Identities=11%  Similarity=0.045  Sum_probs=65.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      ...+...|++++|++.|++..+.++.....|..+..++.+.|++++|+..+++.+... +.+...|..+..++...|+++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3455667778888888877777766555677777777777788888887777777653 234556666777777777888


Q ss_pred             HHHHHHHHHHhcC
Q 023133           86 QLLIFIEEVVQIA   98 (287)
Q Consensus        86 ~a~~~~~~~~~~~   98 (287)
                      +|...|++.++..
T Consensus        88 eA~~~~~~al~l~  100 (356)
T PLN03088         88 TAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHhC
Confidence            8887777777765

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.20  E-value=0.00012  Score=50.36  Aligned_cols=97  Identities=3%  Similarity=-0.032  Sum_probs=58.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ......+...+...|++++|..+|+.+.... +-+..-|-.|..++-..|++++|+..|......++. |...+-.+..+
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c  112 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAEC  112 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHH
Confidence            3444445555566666666666666665543 224445556666666666666666666666665543 55566666666


Q ss_pred             HHhcCchHHHHHHHHHHhh
Q 023133          183 LRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~  201 (287)
                      +...|+.+.|.+.|+..+.
T Consensus       113 ~L~lG~~~~A~~aF~~Ai~  131 (157)
T PRK15363        113 YLACDNVCYAIKALKAVVR  131 (157)
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=98.19  E-value=0.0011  Score=51.76  Aligned_cols=206  Identities=9%  Similarity=0.122  Sum_probs=115.2

Q ss_pred             ChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-----HHHHHHHHHHHhccCChHHHH
Q 023133           14 NVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-----SDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus        14 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      ++++|..+|++.              ...|...+++++|.+.|.+........+     ...|.....++. ..++++|.
T Consensus        30 ~~e~Aa~~y~~A--------------a~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k-~~~~~~Ai   94 (282)
T PF14938_consen   30 DYEEAADLYEKA--------------ANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYK-KGDPDEAI   94 (282)
T ss_dssp             HHHHHHHHHHHH--------------HHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHH-HTTHHHHH
T ss_pred             CHHHHHHHHHHH--------------HHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH-hhCHHHHH
Confidence            566666665554              3344455555555555555432211111     122333333333 33777777


Q ss_pred             HHHHHHHh----cCCCCc--HHHHHHHHHHHHhc-CCHHHHHHHHHHHhc----CCCCCC--HhhHHHHHHHHHhcCCHH
Q 023133           89 IFIEEVVQ----IASPES--IIVVNRIIFAFAKS-RQIEKALLIFDHIKG----LKCKPD--LITYNIVLDILGRVGRVN  155 (287)
Q Consensus        89 ~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~  155 (287)
                      ..+++..+    .| .++  ...+..+...|... |++++|.+.|++..+    .+ .+.  ...+..+...+.+.|+++
T Consensus        95 ~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~  172 (282)
T PF14938_consen   95 ECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYE  172 (282)
T ss_dssp             HHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HH
T ss_pred             HHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHH
Confidence            77766543    33 222  34666777778777 889999988877653    22 221  235667778888999999


Q ss_pred             HHHHHHHHHHHcCCC-----CChh-HHHHHHHHHHhcCchHHHHHHHHHHhhC--CCcCC--HHHHHHHHHHHHh--cCC
Q 023133          156 DMLNEFASMKEAGVV-----PDFI-SYNTLLNNLRKIRRLDLCLIYFREMGES--GIKPD--LLTYTALIDSFGR--TGN  223 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~-----~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~--~~~~~~l~~~~~~--~g~  223 (287)
                      +|.++|++.......     .+.. .|...+-++...|+...|.+.+++....  ++..+  ......|+.++-.  ...
T Consensus       173 ~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~  252 (282)
T PF14938_consen  173 EAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEA  252 (282)
T ss_dssp             HHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCC
T ss_pred             HHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHH
Confidence            999999988664322     1222 2333444566678999999999988754  22222  2355667777754  334


Q ss_pred             HHHHHHHHHHHHh
Q 023133          224 IEESLRLFNDMKQ  236 (287)
Q Consensus       224 ~~~a~~~~~~~~~  236 (287)
                      +..++.-|+.+.+
T Consensus       253 f~~av~~~d~~~~  265 (282)
T PF14938_consen  253 FTEAVAEYDSISR  265 (282)
T ss_dssp             HHHHCHHHTTSS-
T ss_pred             HHHHHHHHcccCc
Confidence            6666666665543

>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=98.18  E-value=4.5e-05  Score=55.10  Aligned_cols=51  Identities=29%  Similarity=0.411  Sum_probs=36.1

Q ss_pred             CCCHhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 023133          135 KPDLITYNIVLDILGR-----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK  185 (287)
Q Consensus       135 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  185 (287)
                      ..+..+|..++..|.+     .|+++=....+..|.+.|+.-|..+|+.|+..+=+
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            4577777777777754     35666666677777777777777777777777654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.17  E-value=2.3e-05  Score=59.09  Aligned_cols=100  Identities=12%  Similarity=0.130  Sum_probs=68.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      -+.+.+++++|+..|.+.++.... |.+-|..=..+|++.|.++.|++=.+..+..+ +-...+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            355677777888777777776433 56666667777777787777777777666543 2234577777777777788888


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHH
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLI  250 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li  250 (287)
                      |++.|++.++  +.|+-.+|..=+
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL  189 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNL  189 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHH
Confidence            8777777775  466666554433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.15  E-value=0.00039  Score=49.85  Aligned_cols=62  Identities=16%  Similarity=0.103  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC--HhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD--LITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      .+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+.+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  100 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE  100 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344445555555555555555555543321111  23444444555555555555555555444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=0.00046  Score=52.48  Aligned_cols=110  Identities=11%  Similarity=0.035  Sum_probs=85.1

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhCCCCcchHhHHH
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT---GNIEESLRLFNDMKQQQIRPSIYVYRS  248 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~~~  248 (287)
                      |...|-.|..+|...|+++.|..-|.+..+.. .++...+..+..++...   .+..++..+|+++.+.+ +-|+.....
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHHH
Confidence            78889999999999999999999999888753 45666666666665433   34677888999998763 456777778


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          249 LIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      |...+...|++.+|...|+.|.++.|.+.......
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~i  267 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLI  267 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            88889999999999999999988887666554443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=98.14  E-value=0.00065  Score=50.14  Aligned_cols=53  Identities=17%  Similarity=0.227  Sum_probs=24.5

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLV   61 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~   61 (287)
                      +...|++++|.+.|+.+....+.++   .+...++.++.+.|+++.|...++++++
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555554444333   3444444455555555555555555444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.14  E-value=0.00014  Score=51.94  Aligned_cols=63  Identities=13%  Similarity=-0.004  Sum_probs=31.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC--ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVP--DFISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                      .|..+...+...|++++|...|+........|  ...++..+...+...|++++|...+++....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~  101 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34444444555555555555555554332111  1234555555555555555555555555543

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.10  E-value=0.0037  Score=51.47  Aligned_cols=174  Identities=9%  Similarity=0.042  Sum_probs=125.4

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP-DLITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      .+.....++++...-...-..+|..+|+.-.+..-+..|..+|.+..+.+..+ ++...++++.-||. ++.+-|.++|+
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            55566667666654323334567888998889999999999999999887666 67788888887764 57888999998


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHhC---
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL--LTYTALIDSFGRTGNIEESLRLFNDMKQQ---  237 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---  237 (287)
                      --.+.- .-+..--...+.-+...++-..+..+|++....++.|+.  ..|..++.--..-|+...+.++-+++...   
T Consensus       426 LGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~  504 (656)
T KOG1914|consen  426 LGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPA  504 (656)
T ss_pred             HHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcch
Confidence            855442 113333455677778889999999999999988666554  68999999999999999999998887643   


Q ss_pred             CCCcchHhHHHHHHHHHhcCCh
Q 023133          238 QIRPSIYVYRSLIDNLKKMGKV  259 (287)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~  259 (287)
                      ...+....-..+++-|.-.+.+
T Consensus       505 ~qe~~~~~~~~~v~RY~~~d~~  526 (656)
T KOG1914|consen  505 DQEYEGNETALFVDRYGILDLY  526 (656)
T ss_pred             hhcCCCChHHHHHHHHhhcccc
Confidence            1222223334445555444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=98.10  E-value=0.00044  Score=45.89  Aligned_cols=57  Identities=11%  Similarity=0.127  Sum_probs=25.8

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHh
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   96 (287)
                      ..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++...
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444555555555555544443322  12333344444444555555555544443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.07  E-value=3.4e-05  Score=45.93  Aligned_cols=67  Identities=18%  Similarity=0.194  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcC-ChHHHHHHHHHHhhcCC
Q 023133          207 DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMG-KVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       207 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~~~~~~~  274 (287)
                      +...|..+...+...|++++|+..|++.++.. +.+...|..+..++...| ++++|++.+++..+..|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            34566777777777777777777777777653 335566777777777777 57777777777776655

...

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=0.001  Score=52.77  Aligned_cols=260  Identities=12%  Similarity=0.001  Sum_probs=158.0

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCT   85 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~   85 (287)
                      ..+.+..++.+|+..+....+..+.....|..-+..+...|++++++--.+.-.+.  +|. .......-+++...++..
T Consensus        57 n~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~--kd~~~k~~~r~~~c~~a~~~~i  134 (486)
T KOG0550|consen   57 NAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRL--KDGFSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             chHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheec--CCCccccccchhhhhhhhHHHH
Confidence            45566777888888888887776654456666666677777777776655554332  221 112222333333333333


Q ss_pred             HHHHHHH---------------HHHhcCC-CCcHHHHHHH-HHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHH--H
Q 023133           86 QLLIFIE---------------EVVQIAS-PESIIVVNRI-IFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVL--D  146 (287)
Q Consensus        86 ~a~~~~~---------------~~~~~~~-~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~--~  146 (287)
                      +|.+.++               ....... +|....+..+ ..++.-.|++++|.+.-....+.. ..+  .+...+  .
T Consensus       135 ~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n--~~al~vrg~  211 (486)
T KOG0550|consen  135 EAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATN--AEALYVRGL  211 (486)
T ss_pred             HHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cch--hHHHHhccc
Confidence            3333322               1111111 2333333333 245566788888888777666542 122  233333  3


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH-------------HHHHHHhcCchHHHHHHHHHHhhC---CCcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNT-------------LLNNLRKIRRLDLCLIYFREMGES---GIKPDLLT  210 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------------l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~  210 (287)
                      ++...++.+.|...|++.+..+  |+...-..             =..-..+.|++..|.+.|.+.+..   .+.|+...
T Consensus       212 ~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nakl  289 (486)
T KOG0550|consen  212 CLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKL  289 (486)
T ss_pred             ccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHH
Confidence            3446778888888888877653  44322211             122356788999999999998753   34566677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      |........+.|+.++|+.-.++..+.  .|. +..+..-..++...++|++|.+-|++..+...+
T Consensus       290 Y~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra~c~l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  290 YGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRANCHLALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            777777888999999999999888764  222 223344445667788999999999999777665

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.06  E-value=0.00074  Score=56.98  Aligned_cols=71  Identities=13%  Similarity=0.046  Sum_probs=47.3

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhH
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVY  246 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  246 (287)
                      +...|..+.......|++++|...+++..+.  .|+...|..+...+...|+.++|.+.+++....  .|...+|
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            3455665555555567777777777777766  356667777777777777777777777777653  4544443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.04  E-value=0.00042  Score=51.61  Aligned_cols=136  Identities=14%  Similarity=0.042  Sum_probs=78.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH-----H
Q 023133          142 NIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI-----D  216 (287)
Q Consensus       142 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~-----~  216 (287)
                      ++++.++.-.|.+.-....+++..+...+.++.....+.+.-.+.|+.+.|..+|++..+..-..|..+++.++     .
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            45555555666666666677776666555566666667777777777777777777665432233333333332     2


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          217 SFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .|.-++++.+|...+.+....+ +.|+..-+.-.-+..-.|+..+|.+.++.|....|....
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l  321 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYL  321 (366)
T ss_pred             heecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccch
Confidence            3445566666666666666542 223333343333444456667777777777666554443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=98.04  E-value=0.0037  Score=49.35  Aligned_cols=241  Identities=17%  Similarity=0.183  Sum_probs=137.4

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-----hhHHHHHHHHhhcCChhHHHHHHHHHHHhc----------CCC
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-----NAYNCVLVASAETNDIDLSFQILKDLLVSS----------RTL   66 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------~~~   66 (287)
                      |..+...-...|+.+-|..+++.=+......|     .-+...+.-..+.|+.+....++-.+.+.-          ..|
T Consensus         3 ~a~IA~~A~~~GR~~LA~~LL~~Ep~~~~qVplLL~m~e~e~AL~kAi~SgD~DLi~~vLl~L~~~l~~s~f~~il~~~p   82 (319)
T PF04840_consen    3 YAEIARKAYEEGRPKLATKLLELEPRASKQVPLLLKMGEDELALNKAIESGDTDLIYLVLLHLKRKLSLSQFFKILNQNP   82 (319)
T ss_pred             HHHHHHHHHHcChHHHHHHHHHcCCChHHHHHHHhcCCchHHHHHHHHHcCCccHHHHHHHHHHHhCCHHHHHHHHHhCc
Confidence            56677778889999999888765322211111     234555566667777777766666655421          011


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHH--------------HHHhc-CCCCcHHHHHHHHHHHHhcCC-------HHHHHH
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIE--------------EVVQI-ASPESIIVVNRIIFAFAKSRQ-------IEKALL  124 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~--------------~~~~~-~~~~~~~~~~~l~~~~~~~~~-------~~~a~~  124 (287)
                      ..   ..+...|++..+.+....+|.              +..+. ....-...+......|.+.++       .++..+
T Consensus        83 ~a---~~l~~~~~r~~~~~~L~~~y~q~d~~~~~a~~~l~~~~~~~~~~~~~~~L~~a~~~y~~~k~~~f~~~~~e~q~~  159 (319)
T PF04840_consen   83 VA---SNLYKKYCREQDRELLKDFYYQEDRFQELANLHLQEALSQKDVEEKISFLKQAQKLYSKSKNDAFEAKLIEEQIK  159 (319)
T ss_pred             ch---HHHHHHHHHhccHHHHHHHHHhcchHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            11   112223444334333333332              22111 111112223333444444444       122222


Q ss_pred             HHHHHh----cCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          125 IFDHIK----GLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       125 ~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      +++.-.    +.+......+.+.-+.-+...|+...|.++-.+..   + |+..-|-..+.+++..++|++-.++...  
T Consensus       160 Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk---v-~dkrfw~lki~aLa~~~~w~eL~~fa~s--  233 (319)
T PF04840_consen  160 LLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFK---V-PDKRFWWLKIKALAENKDWDELEKFAKS--  233 (319)
T ss_pred             HHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHcC---C-cHHHHHHHHHHHHHhcCCHHHHHHHHhC--
Confidence            222111    11212223355556677778888888887766553   3 6888899999999999999988876532  


Q ss_pred             hCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHH
Q 023133          201 ESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       201 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                       .   -++.-|..++.+|.+.|...+|..+..++.          +..-+..|.++|++.+|.+.
T Consensus       234 -k---KsPIGyepFv~~~~~~~~~~eA~~yI~k~~----------~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  234 -K---KSPIGYEPFVEACLKYGNKKEASKYIPKIP----------DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             -C---CCCCChHHHHHHHHHCCCHHHHHHHHHhCC----------hHHHHHHHHHCCCHHHHHHH
Confidence             1   234678889999999999999998887721          24456667788888887654

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=97.98  E-value=3.8e-05  Score=45.58  Aligned_cols=51  Identities=14%  Similarity=0.199  Sum_probs=25.4

Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .|++++|.+.|+++.+.. |.+..++..+..+|.+.|++++|..+++++...
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            445555555555555443 334444445555555555555555555555443

...

>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=97.97  E-value=3.1e-05  Score=45.94  Aligned_cols=53  Identities=23%  Similarity=0.236  Sum_probs=31.0

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS   62 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   62 (287)
                      .+.|++++|+++|+.+....+..+.++..+..++.+.|++++|..+++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34566666666666666655544455556666666666666666666666543

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.97  E-value=0.00029  Score=53.91  Aligned_cols=102  Identities=12%  Similarity=0.125  Sum_probs=70.2

Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcchHhHH
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL----LTYTALIDSFGRTGNIEESLRLFNDMKQQQ--IRPSIYVYR  247 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~  247 (287)
                      ..|...+..+.+.|++++|...|+.+.+.  .|+.    ..+-.+..+|...|++++|...|+.+.+.-  -+.....+.
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            34555555445668888888888888765  2332    456677788888888888888888887541  111234455


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          248 SLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .+...+...|+.++|..+|+++.+..|+..
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            556667788888888888888888887654

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.93  E-value=7.4e-05  Score=45.04  Aligned_cols=66  Identities=12%  Similarity=0.147  Sum_probs=48.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhH
Q 023133          216 DSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDF  282 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  282 (287)
                      ..|.+.+++++|.++++.+.+.+ +.+...+.....++...|++++|.+.|++..+..|+.+.....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~   68 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARAL   68 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            45677888888888888888753 3456667777777888888888888888888887766655443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.93  E-value=0.00023  Score=53.88  Aligned_cols=129  Identities=17%  Similarity=0.202  Sum_probs=93.3

Q ss_pred             HHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           42 ASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      -+.+.+++.+|+..|.+.++.. +-|...|..-..+|++.|.++.|.+-.+..+..+ +.-..+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHH
Confidence            4568889999999999988752 3356667778888999999999999988888876 4567789999999999999999


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHH-hcCCHH---HHHHHHHHHHHcCCCCChh
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILG-RVGRVN---DMLNEFASMKEAGVVPDFI  174 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~---~a~~~~~~~~~~~~~~~~~  174 (287)
                      |++.|++..+.  .|+-.+|-.=+.... +.+...   .+..-++.....|..|+..
T Consensus       168 A~~aykKaLel--dP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig~~Pd~~  222 (304)
T KOG0553|consen  168 AIEAYKKALEL--DPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIGAFPDSR  222 (304)
T ss_pred             HHHHHHhhhcc--CCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhccCCccch
Confidence            99999988876  677777755554433 233332   3444444444445545554

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.93  E-value=6.1e-05  Score=44.23  Aligned_cols=58  Identities=12%  Similarity=0.104  Sum_probs=39.8

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS   62 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   62 (287)
                      +...+.+.|++++|++.|+.+.+..+..+.++..+..++.+.|++++|...|++.++.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4456667777777777777777776444467777777777777777777777777654

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.92  E-value=0.00099  Score=44.22  Aligned_cols=106  Identities=13%  Similarity=0.030  Sum_probs=78.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC--CHHHHHHHHHHHh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL--SSDCYTNFARAFI   79 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~   79 (287)
                      +..++-..|+.++|+.+|++....|...+   ..+..+...+...|++++|+.++++.......+  +......+.-++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            45677789999999999999999887665   678888899999999999999999998753210  2223333445677


Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      ..|+.++|.+.+-......    ...|.--|..|.
T Consensus        87 ~~gr~~eAl~~~l~~la~~----~~~y~ra~~~ya  117 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALAET----LPRYRRAIRFYA  117 (120)
T ss_pred             HCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Confidence            8899999999887665432    235555555554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.0022  Score=48.90  Aligned_cols=102  Identities=9%  Similarity=0.110  Sum_probs=71.2

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC---CHHHHHHHHHHHhcCCCCCCHhhH
Q 023133           65 TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR---QIEKALLIFDHIKGLKCKPDLITY  141 (287)
Q Consensus        65 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~  141 (287)
                      +-|...|..|...|...|+++.|...|.+..+.. +++...+..+..++....   ...++..+|+++.... +.++.+.
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-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            4467778888888888888888888888877765 456666666665554432   3457777888877664 3455566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133          142 NIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus       142 ~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      ..|...+...|++.+|...|+.|.+..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            666677778888888888888887763

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.84  E-value=0.00061  Score=52.16  Aligned_cols=104  Identities=9%  Similarity=0.114  Sum_probs=76.4

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC--CCcHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS--PESIIVVNRI  109 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l  109 (287)
                      ..|...+....+.|++++|...|+.+++......  ...+..+..++...|++++|...|+.+.+...  +.....+..+
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~kl  223 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKV  223 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHH
Confidence            5666666666777899999999999987632211  34667788889999999999999999886532  2234555556


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcCCCCCCHh
Q 023133          110 IFAFAKSRQIEKALLIFDHIKGLKCKPDLI  139 (287)
Q Consensus       110 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  139 (287)
                      ...+...|+.++|..+|+.+.+.  .|+..
T Consensus       224 g~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        224 GVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            77788899999999999988876  35544

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.84  E-value=0.0099  Score=47.59  Aligned_cols=178  Identities=13%  Similarity=0.105  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCC---CCCCHhhHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCChhHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLK---CKPDLITYNIVLDILGR---VGRVNDMLNEFASMKEAGVVPDFISYN  177 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  177 (287)
                      .+...++-.|-...+++..+++++.+...-   +......-....-++.+   .|+.++|+.++..+......++..+|.
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~g  221 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLG  221 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHH
Confidence            334455567888999999999999998641   11112222234445556   889999999999966666677888888


Q ss_pred             HHHHHHHh---------cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC----HHHHHHHH---HH-HHhCCC-
Q 023133          178 TLLNNLRK---------IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN----IEESLRLF---ND-MKQQQI-  239 (287)
Q Consensus       178 ~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~~a~~~~---~~-~~~~~~-  239 (287)
                      .+.+.|-.         ....++|.+.|.+.-+.  .||..+=-.++..+...|.    -.+..++-   .. +.+.|. 
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            88776533         22467788888876654  3444321112222222232    12222322   22 223332 


Q ss_pred             --CcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          240 --RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       240 --~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                        ..+---+.+++.+..-.|++++|.+..++|.+..|...-..+..
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~l~St~  345 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWELESTL  345 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchhHHHHH
Confidence              33455667788888899999999999999988766554444433

>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=97.81  E-value=0.00017  Score=42.92  Aligned_cols=60  Identities=15%  Similarity=0.334  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHh
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR-QIEKALLIFDHIK  130 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~  130 (287)
                      .|..+...+...|++++|+..|++.++.. +.+..+|..+..+|...| ++++|++.+++..
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            34444444444444444444444444443 334444444444444444 3444444444433

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.75  E-value=0.0084  Score=44.28  Aligned_cols=64  Identities=11%  Similarity=0.177  Sum_probs=34.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCC--CCHHHHHHHHHHHhccCChHHHHHHHHHHHhcC
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRT--LSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   98 (287)
                      .+......+.+.|++.+|...|+.+...-..  --....-.++.++.+.|+++.|...++++++..
T Consensus         7 ~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen    7 ALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            3344445556667777777777777654211  112334445666666677777777777666553

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=97.75  E-value=0.0091  Score=44.68  Aligned_cols=58  Identities=10%  Similarity=0.237  Sum_probs=37.2

Q ss_pred             HHHhhcCChhHHHHHHHHHHHhc--CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcC
Q 023133           41 VASAETNDIDLSFQILKDLLVSS--RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        41 ~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   98 (287)
                      ..-.+.|++++|.+.|+.+...-  -+-...+...++.++.+.++++.|...+++.++..
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            34446777777777777776542  11233455556666777777777777777776654

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.71  E-value=0.017  Score=46.73  Aligned_cols=60  Identities=12%  Similarity=0.108  Sum_probs=48.8

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLV   61 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   61 (287)
                      |-.||.-|...|..++..+++++|....+..+.+|..-+.+-...+++..+..+|.+.+.
T Consensus        45 ~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~  104 (660)
T COG5107          45 YFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLK  104 (660)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHh
Confidence            678999999999999999999999988777667888777776667777777777766544

>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=97.69  E-value=0.0017  Score=45.15  Aligned_cols=71  Identities=18%  Similarity=0.238  Sum_probs=46.2

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCcchHhH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ-----QQIRPSIYVY  246 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~  246 (287)
                      +...++..+...|++++|..+.+.+.... +.|...|..+|.+|...|+..+|.++|+++.+     .|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            44556666777888888888888877664 55667788888888888888888888877753     3777776553

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.55  E-value=0.014  Score=41.45  Aligned_cols=126  Identities=10%  Similarity=0.022  Sum_probs=75.6

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCChhHH
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG---VVPDFISY  176 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~  176 (287)
                      -|++.--..|..+....|+..+|...|++...--+.-|....-.+..+....+++..|...++.+-+.+   -.||  +-
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            355555556666777777777777777766543333455555666666666777777777777765543   1222  33


Q ss_pred             HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHH
Q 023133          177 NTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       177 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  229 (287)
                      ..+.+.+...|....|..-|+.....  -|+...-......+.+.|+.+++..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHH
Confidence            44556666677777777777776665  4454444344445566666555544

>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=97.54  E-value=0.0018  Score=43.42  Aligned_cols=86  Identities=21%  Similarity=0.277  Sum_probs=68.1

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhh---------------CCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGE---------------SGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      |..++..++.++++.|+.+....+++..=.               ....|+..+..+++.+|+..|++..|+++++...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            457888999999999999999998876521               12457888889999999999999999999998874


Q ss_pred             C-CCCcchHhHHHHHHHHHhcC
Q 023133          237 Q-QIRPSIYVYRSLIDNLKKMG  257 (287)
Q Consensus       237 ~-~~~~~~~~~~~li~~~~~~g  257 (287)
                      . +++.+..+|..|+.-....-
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v~s  102 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYVLS  102 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHHhc
Confidence            4 67777888888888654443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.54  E-value=0.001  Score=39.97  Aligned_cols=56  Identities=9%  Similarity=0.011  Sum_probs=36.6

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS   62 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   62 (287)
                      ..|.+.+++++|.++++.+...++..+..+.....++.+.|++++|...+++..+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            45666666777777776666666554466666666666666666666666666654

>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=97.52  E-value=0.00052  Score=47.76  Aligned_cols=71  Identities=17%  Similarity=0.173  Sum_probs=47.2

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH-----hcCCCCcHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVV-----QIASPESIIVV  106 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~  106 (287)
                      +...++..+...|+++.|..+++.+.... +.+...|..+|.++...|+...|.+.|+++.     +.|++|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            56667777777888888888888887753 4567788888888888888888888887653     34777766543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.48  E-value=0.0066  Score=40.77  Aligned_cols=84  Identities=12%  Similarity=0.036  Sum_probs=62.4

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH---------------cCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          137 DLITYNIVLDILGRVGRVNDMLNEFASMKE---------------AGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---------------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      |..++..++.++++.|+.+....+++..-.               ....|+..+..+++.+|+..+++..|.++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            456778888888888888888888766411               12457788888888888888888888888888764


Q ss_pred             -CCCcCCHHHHHHHHHHHHh
Q 023133          202 -SGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       202 -~~~~~~~~~~~~l~~~~~~  220 (287)
                       -+++.+...|..|+.-...
T Consensus        81 ~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             HcCCCCCHHHHHHHHHHHHH
Confidence             4566677788887775443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.46  E-value=0.00069  Score=41.34  Aligned_cols=63  Identities=14%  Similarity=0.279  Sum_probs=38.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-Ccc-hHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQ----QI-RPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      .+++.+...|...|++++|++.|++..+.    |- .|+ ..++..+..++...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            35666666777777777777777666532    11 122 44566666677777777777777776643

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.45  E-value=0.037  Score=43.86  Aligned_cols=110  Identities=14%  Similarity=0.110  Sum_probs=87.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR  184 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  184 (287)
                      +.+..+.-+...|+...|.++-.+..    -||..-|-..+.+++..++|++-..+-..      +-++..|..++.+|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            34455666778899999999988775    68999999999999999999987765432      124588999999999


Q ss_pred             hcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      +.|+..+|..+..++.          +..-+..|.+.|++.+|.+.--+.
T Consensus       249 ~~~~~~eA~~yI~k~~----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  249 KYGNKKEASKYIPKIP----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HCCCHHHHHHHHHhCC----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            9999999999888722          244577788999999998765443

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

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.44  E-value=0.0051  Score=49.07  Aligned_cols=266  Identities=12%  Similarity=0.092  Sum_probs=163.0

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHH--Hh--cCCC-CHHHHHHHHHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLL--VS--SRTL-SSDCYTNFARA   77 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~--~~~~-~~~~~~~l~~~   77 (287)
                      .-+|+.|+...-..+|+...+-|...-    ..|..|..+|.-.+++++|+++...=+  .+  |-+. .......|.+.
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNt  104 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNT  104 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccch
Confidence            457899999999999999988876532    467777888888888999887643211  10  1110 11122223344


Q ss_pred             HhccCChHHHHHHHHH----HHhcCCC-CcHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHHh--
Q 023133           78 FIMTDDCTQLLIFIEE----VVQIASP-ESIIVVNRIIFAFAKSRQ--------------------IEKALLIFDHIK--  130 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~----~~~~~~~-~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~--  130 (287)
                      +--.|.+++|.-...+    ..+.|-. .....+..+...|...|+                    ++.|.++|.+=.  
T Consensus       105 lKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l  184 (639)
T KOG1130|consen  105 LKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLEL  184 (639)
T ss_pred             hhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHH
Confidence            4445666666544322    1222211 223445556666665442                    233444443321  


Q ss_pred             --cCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHH----HHcCCC-CChhHHHHHHHHHHhcCchHHHHHHHHHHh--
Q 023133          131 --GLKCK-PDLITYNIVLDILGRVGRVNDMLNEFASM----KEAGVV-PDFISYNTLLNNLRKIRRLDLCLIYFREMG--  200 (287)
Q Consensus       131 --~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--  200 (287)
                        +.|-. .....|..|...|.-.|+++.|+..-+.-    ++.|-. .....+..+..++.-.|+++.|.+.|+...  
T Consensus       185 ~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~L  264 (639)
T KOG1130|consen  185 SEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNL  264 (639)
T ss_pred             HHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHH
Confidence              11100 11234566666677778899988765442    233321 123567888888888999999999988754  


Q ss_pred             --hCCC-cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          201 --ESGI-KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ-----QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       201 --~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                        +.|- .....+.-.|..+|.-..++++|+.++.+-..-     ...-....+.+|..+|...|..+.|+.+.+..+++
T Consensus       265 Aielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  265 AIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence              2221 223345567888888888999999988765421     12235677888999999999999999988877554

>PRK15331 chaperone protein SicA; Provisional

Probab=97.41  E-value=0.02  Score=39.92  Aligned_cols=90  Identities=8%  Similarity=-0.128  Sum_probs=63.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      ..-+...|++++|..+|.-+.-.+.. +..-|..|..++...+++++|...|......+ .-|...+-....+|...|+.
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d~~-n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYDFY-NPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCH
Confidence            34455778888888888887665543 55556667777777888888888887765443 23444455677788888888


Q ss_pred             HHHHHHHHHHHh
Q 023133          225 EESLRLFNDMKQ  236 (287)
Q Consensus       225 ~~a~~~~~~~~~  236 (287)
                      +.|...|....+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887776

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.36  E-value=0.026  Score=40.14  Aligned_cols=160  Identities=12%  Similarity=0.044  Sum_probs=116.3

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      .-..+..+..+.=+++...+-..+-.  ..-|+...-..|..+..+.|+..+|...|++...--+-.|....-.+.++..
T Consensus        58 ~a~~~~~a~~q~ldP~R~~Rea~~~~--~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqf  135 (251)
T COG4700          58 HAHTLLMALQQKLDPERHLREATEEL--AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQF  135 (251)
T ss_pred             hhHHHHHHHHHhcChhHHHHHHHHHH--hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHH
Confidence            34455556666666666554443333  2467777777899999999999999999999987666778888899999999


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH
Q 023133          115 KSRQIEKALLIFDHIKGLKCKP---DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL  191 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  191 (287)
                      ..+++..|..+++.+-+..  |   +..+.-.+...+...|.+..|..-|+.....-..|....|  ....+.+.|+.++
T Consensus       136 a~~~~A~a~~tLe~l~e~~--pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~--Y~e~La~qgr~~e  211 (251)
T COG4700         136 AIQEFAAAQQTLEDLMEYN--PAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQARIY--YAEMLAKQGRLRE  211 (251)
T ss_pred             hhccHHHHHHHHHHHhhcC--CccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHH--HHHHHHHhcchhH
Confidence            9999999999999987753  3   2334556778899999999999999999886544444443  3344556776666


Q ss_pred             HHHHHHHHh
Q 023133          192 CLIYFREMG  200 (287)
Q Consensus       192 a~~~~~~~~  200 (287)
                      +..-+..+.
T Consensus       212 a~aq~~~v~  220 (251)
T COG4700         212 ANAQYVAVV  220 (251)
T ss_pred             HHHHHHHHH
Confidence            655444443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.35  E-value=0.037  Score=41.66  Aligned_cols=143  Identities=10%  Similarity=0.084  Sum_probs=99.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHH---
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLL---  180 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~---  180 (287)
                      .+-+.++..+.-.|.+.-....+.++++...+-+......|.+.-.+.|+.+.|..+|++..+..-+.|..+++.++   
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            34556677777778888888888888876545566677788888888899999998888776554444444444443   


Q ss_pred             --HHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHH
Q 023133          181 --NNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSL  249 (287)
Q Consensus       181 --~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  249 (287)
                        ..|.-++++..|...+.++...+ +.|....|.=.-+..-.|+...|++.++.|.+.  .|...+.+++
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence              34556778888888888887764 345555555444555568889999999999875  4555554433

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.32  E-value=0.013  Score=44.32  Aligned_cols=88  Identities=9%  Similarity=0.120  Sum_probs=41.4

Q ss_pred             hcCChhHHHHHHHHHHHhcC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCC--CcHHHHHHHHHHHHhcCCHH
Q 023133           45 ETNDIDLSFQILKDLLVSSR--TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASP--ESIIVVNRIIFAFAKSRQIE  120 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~  120 (287)
                      +.|++..|...|...++...  ......+-.|..++...|+++.|..+|..+.+....  --+..+--|.....+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            44445555555555554321  111223334555555555555555555555443211  11233444445555555555


Q ss_pred             HHHHHHHHHhcC
Q 023133          121 KALLIFDHIKGL  132 (287)
Q Consensus       121 ~a~~~~~~~~~~  132 (287)
                      +|..+|+++.+.
T Consensus       233 ~A~atl~qv~k~  244 (262)
T COG1729         233 EACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHHHH
Confidence            555555555543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.31  E-value=0.081  Score=45.07  Aligned_cols=204  Identities=11%  Similarity=0.127  Sum_probs=112.7

Q ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcC----CCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133           51 LSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIA----SPESIIVVNRIIFAFAKSRQIEKALLIF  126 (287)
Q Consensus        51 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~  126 (287)
                      +.+.-++++.++|-.|+...   +...|+-.|++.+|.++|.+--..+    .-.|...|. +..-|...|..++-..+.
T Consensus       618 ~li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD-~aQE~~~~g~~~eKKmL~  693 (1081)
T KOG1538|consen  618 ELISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD-YAQEFLGSGDPKEKKMLI  693 (1081)
T ss_pred             HHHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH-HHHHHhhcCChHHHHHHH
Confidence            33444566677777777654   3456777788998888886531111    001111111 222333344433333333


Q ss_pred             HHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH------HHHcCCCC---ChhHHHHHHHHHHhcCchHHHHHHHH
Q 023133          127 DHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS------MKEAGVVP---DFISYNTLLNNLRKIRRLDLCLIYFR  197 (287)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~  197 (287)
                      ++-.+.  ..+..-=.+....+...|+.++|..+..+      +.+-+.+.   +..+...+...+-+...+.-|.++|.
T Consensus       694 RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~  771 (1081)
T KOG1538|consen  694 RKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFL  771 (1081)
T ss_pred             HHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHH
Confidence            221111  00111112233445566777777665322      12222222   33455555555666677788888888


Q ss_pred             HHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH-----------hHHHHHHHHHhcCChHHHHHHH
Q 023133          198 EMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY-----------VYRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       198 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----------~~~~li~~~~~~g~~~~a~~~~  266 (287)
                      .|-+.         ..+++.....+++++|..+-+...+.  .||+.           -|.-.-.+|.++|+..+|.+++
T Consensus       772 k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vL  840 (1081)
T KOG1538|consen  772 KMGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVL  840 (1081)
T ss_pred             HhccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHH
Confidence            77532         24677788899999999998887763  34432           2333446788899999999999


Q ss_pred             HHHhh
Q 023133          267 EEMNS  271 (287)
Q Consensus       267 ~~~~~  271 (287)
                      +++..
T Consensus       841 eQLtn  845 (1081)
T KOG1538|consen  841 EQLTN  845 (1081)
T ss_pred             HHhhh
Confidence            88844

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.073  Score=42.75  Aligned_cols=166  Identities=9%  Similarity=-0.008  Sum_probs=111.4

Q ss_pred             HHHHHHHH-HHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHH----
Q 023133           68 SDCYTNFA-RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYN----  142 (287)
Q Consensus        68 ~~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----  142 (287)
                      ..++..+- .++.-.+++++|.+.--...+.. ..+......-..++.-.++.+.+...|++....+  |+...--    
T Consensus       168 c~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~  244 (486)
T KOG0550|consen  168 CFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASM  244 (486)
T ss_pred             hhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhh
Confidence            34444333 45567789999998887777765 3333333333344556788899999999888763  5443211    


Q ss_pred             ---------HHHHHHHhcCCHHHHHHHHHHHHHc---CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH
Q 023133          143 ---------IVLDILGRVGRVNDMLNEFASMKEA---GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT  210 (287)
Q Consensus       143 ---------~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  210 (287)
                               .=..-..+.|++..|.+.|.+.+..   +..|+...|........+.|+..+|+.--++..+.+ ..-...
T Consensus       245 ~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD-~syika  323 (486)
T KOG0550|consen  245 MPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID-SSYIKA  323 (486)
T ss_pred             hHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC-HHHHHH
Confidence                     1123356789999999999998764   345667778888888889999999998888877542 111123


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      |..-..++...+++++|.+-++...+.
T Consensus       324 ll~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  324 LLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            444455677788999999999888764

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.23  E-value=0.024  Score=49.30  Aligned_cols=173  Identities=13%  Similarity=0.097  Sum_probs=111.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      +..+++...++.|+.+-+.-   +..+.   .........+.+.|++++|...|-+-+.. +.|.     .++.-|....
T Consensus       341 L~iL~kK~ly~~Ai~LAk~~---~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq  411 (933)
T KOG2114|consen  341 LDILFKKNLYKVAINLAKSQ---HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQ  411 (933)
T ss_pred             HHHHHHhhhHHHHHHHHHhc---CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHH
Confidence            45566666667776655442   22122   33444455567789999998888776532 2222     2556667777


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCK-PDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      +...-..+++.+.+.|. .+...-..|+.+|.+.++.++-.+..+.-. .|.. .|   ....+..+.+.+-.++|..+-
T Consensus       412 ~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA  486 (933)
T KOG2114|consen  412 RIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLA  486 (933)
T ss_pred             HHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHH
Confidence            77888888888888885 555666778999999999988887776654 2211 12   345667777777777777665


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      .....     .......++   -..+++++|.+++..+.
T Consensus       487 ~k~~~-----he~vl~ill---e~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  487 TKFKK-----HEWVLDILL---EDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHhcc-----CHHHHHHHH---HHhcCHHHHHHHHhcCC
Confidence            54433     233344444   35688999998887764

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.23  E-value=0.11  Score=44.82  Aligned_cols=112  Identities=13%  Similarity=0.145  Sum_probs=79.9

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          136 PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       136 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      ...-+.+--+.-+...|+-.+|.++-.+.+-    ||...|-.=+.+++..+++++-+++-+...      .+.-|...+
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki----pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFKI----PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcCC----cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            3444555566667778888888887766553    688888888888999999988777665543      235577788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHH
Q 023133          216 DSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  266 (287)
                      .+|.+.|+.++|.+++.+....     .    -...+|.+.|++.+|.++-
T Consensus       752 e~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHH
Confidence            8999999999999988765421     1    4566777777777776543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.18  E-value=0.0023  Score=39.00  Aligned_cols=61  Identities=30%  Similarity=0.464  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhC----CC-cCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGES----GI-KPD-LLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|+.+...|...|++++|...|++..+.    |- .|+ ..++..+..+|...|++++|++.+++..
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            4455555555555555555555554421    10 111 3345555555566666666666555543

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.13  E-value=0.045  Score=38.24  Aligned_cols=92  Identities=9%  Similarity=-0.048  Sum_probs=63.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc
Q 023133          109 IIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  188 (287)
                      ..--+...|++++|..+|.-+...+ .-+..-|..|..++-..+++++|...|......+.. |...+-....++...|+
T Consensus        43 ~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         43 HAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCC
Confidence            3444556788888888888776654 234445666777777778888888888776555432 44445556777778888


Q ss_pred             hHHHHHHHHHHhhC
Q 023133          189 LDLCLIYFREMGES  202 (287)
Q Consensus       189 ~~~a~~~~~~~~~~  202 (287)
                      .+.|...|....+.
T Consensus       121 ~~~A~~~f~~a~~~  134 (165)
T PRK15331        121 AAKARQCFELVNER  134 (165)
T ss_pred             HHHHHHHHHHHHhC
Confidence            88888888877763

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.13  E-value=0.014  Score=44.08  Aligned_cols=104  Identities=16%  Similarity=0.133  Sum_probs=77.3

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCC--cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCc-chHhHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGI--KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ-QIRP-SIYVYRSLI  250 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~-~~~~~~~li  250 (287)
                      .|+.-+.. .+.|++..|..-|...++...  .-....+-.|..++...|+++.|..+|..+.+. +-.| -+..+--|.
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            57766664 467789999999998887531  111234556889999999999999999988864 1122 236677788


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          251 DNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      .+..+.|+.++|...|+++.+..|+.+..
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~aA  251 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDAA  251 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHHH
Confidence            88889999999999999999998877643

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.12  E-value=0.016  Score=46.20  Aligned_cols=95  Identities=14%  Similarity=0.194  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh-HHHHHHH
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT-YNIVLDI  147 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~  147 (287)
                      .++..+.-++.+.+++..|++...+.+..+ ++++-...--..++...|+++.|...|+++.+.  .|+... -+.|+.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence            345556677777788888888877777776 566666666777777788888888888877766  444443 3344443


Q ss_pred             HHhcCCH-HHHHHHHHHHHH
Q 023133          148 LGRVGRV-NDMLNEFASMKE  166 (287)
Q Consensus       148 ~~~~~~~-~~a~~~~~~~~~  166 (287)
                      --+.... +...++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            3333333 334666777644

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.10  E-value=0.023  Score=46.36  Aligned_cols=66  Identities=9%  Similarity=0.036  Sum_probs=42.4

Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL----ITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      +.+...++.+..+|.+.|++++|+..|++..+.  .|+.    .+|..+..+|...|+.++|+..+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            345566666777777777777777777666655  3442    24666667777777777777777666654

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=97.08  E-value=0.052  Score=38.15  Aligned_cols=121  Identities=12%  Similarity=0.049  Sum_probs=50.8

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH-HHHHH--HHHHhccCCh
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD-CYTNF--ARAFIMTDDC   84 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l--~~~~~~~~~~   84 (287)
                      .+.+..++|+.-|..+.+.|...-  -+.........+.|+-..|...|.+.-.....|... -...|  .-.+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            344555555555555555443311  111222223344555555555555554433233221 11111  1122344455


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      +......+.+-..+.+.-...-..|.-+-.+.|++.+|.+.|..+.
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHH
Confidence            5444444444433333333334444444445555555555555443

>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=97.06  E-value=0.058  Score=44.81  Aligned_cols=158  Identities=14%  Similarity=0.098  Sum_probs=76.9

Q ss_pred             HHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           42 ASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      ...-.++++.+.++...-.-.. ..+....+.+++-+.+.|..+.|+++..         |+.   .-.+...+.|+++.
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~~  336 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLDI  336 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHH
T ss_pred             HHHHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHHH
Confidence            3344566666555553111000 1123445556666666666666666532         211   12234456677766


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      |.++.++.      ++...|..|.....+.|+++-|.+.|.+..+         |..|+-.|.-.|+.+.-.++.+....
T Consensus       337 A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  337 ALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             HHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            66654432      3555677777777777777777766665443         34455555566666666666666555


Q ss_pred             CCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          202 SGIKPDLLTYTALIDSFGRTGNIEESLRLFND  233 (287)
Q Consensus       202 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  233 (287)
                      .| .     ++....++...|+.++..+++.+
T Consensus       402 ~~-~-----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  402 RG-D-----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             cc-C-----HHHHHHHHHHcCCHHHHHHHHHH
Confidence            54 1     33334444445666655555543

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.03  E-value=0.02  Score=39.02  Aligned_cols=71  Identities=17%  Similarity=0.179  Sum_probs=44.3

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      ..+.|++++|.+.|+.+..+-+.++   .+...++.+|.+.++++.|...+++.++........-|...+.+++
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~   93 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLS   93 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHH
Confidence            4466777777777777777665555   4566667777777777777777777766543333334444444444

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.01  E-value=0.098  Score=40.95  Aligned_cols=150  Identities=12%  Similarity=0.031  Sum_probs=75.2

Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHH----HHHHHHHHhcCchHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISY----NTLLNNLRKIRRLDL  191 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~  191 (287)
                      .|...+|-..++++.+.- +.|...++-.=.+|..+|+...-...+++.... -.||...|    .....++...|-+++
T Consensus       116 ~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  116 RGKHHEAAIEWDKLLDDY-PTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHhC-chhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            455555555555555432 445555555556666666666666666555433 11222222    222233445566666


Q ss_pred             HHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcchHhHHHHHHHHHhcCChHHHHHHHHH
Q 023133          192 CLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ---QIRPSIYVYRSLIDNLKKMGKVDLAMTIFEE  268 (287)
Q Consensus       192 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (287)
                      |.+.-++..+.+ +.|.-.-.+..+.+...|++.++.+++.+-...   +...-...|-...-.+...+.++.|+++|++
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 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            666666665543 344445555556666666666666665544321   1111111222333334455666666666654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.96  E-value=0.14  Score=41.18  Aligned_cols=31  Identities=13%  Similarity=0.207  Sum_probs=21.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          207 DLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       207 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +--.+.+++.++.-.|+.++|.+..++|.+.
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            3344566677777777777777777777765

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.95  E-value=0.1  Score=39.28  Aligned_cols=63  Identities=11%  Similarity=0.163  Sum_probs=46.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcc---hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          214 LIDSFGRTGNIEESLRLFNDMKQQQIRPS---IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       214 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +..-|.+.|.+..|..-+++|.+. .+-+   ...+-.+..+|...|-.++|.+.-+-+....|+.+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            456688888888888888888876 2222   33456667788888998888888888877777664

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.94  E-value=0.012  Score=44.72  Aligned_cols=51  Identities=27%  Similarity=0.300  Sum_probs=37.4

Q ss_pred             CCCHhhHHHHHHHHHh-----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 023133          135 KPDLITYNIVLDILGR-----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK  185 (287)
Q Consensus       135 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  185 (287)
                      ..|..+|-..+..+..     .++++=....++.|.+.|+.-|..+|+.|+..+-+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPK  119 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPK  119 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcc
Confidence            4567777777777653     35677777777888888888888888888877644

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.93  E-value=0.2  Score=42.29  Aligned_cols=159  Identities=16%  Similarity=0.093  Sum_probs=106.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCC-CCCCH-----hhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhHHHHH-
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLK-CKPDL-----ITYNIVLDILGR----VGRVNDMLNEFASMKEAGVVPDFISYNTL-  179 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-  179 (287)
                      ....=.|+-+.+++.+.+..+.+ +....     -.|+..+..++.    ....+.|.+++..+.+.  -|+...|... 
T Consensus       196 ~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~  273 (468)
T PF10300_consen  196 SFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFE  273 (468)
T ss_pred             hhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            33445688888988888766532 22111     234555554443    45788999999999886  3666655443 


Q ss_pred             HHHHHhcCchHHHHHHHHHHhhCC-C--cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHH-HHh
Q 023133          180 LNNLRKIRRLDLCLIYFREMGESG-I--KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDN-LKK  255 (287)
Q Consensus       180 ~~~~~~~~~~~~a~~~~~~~~~~~-~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~-~~~  255 (287)
                      .+.+...|++++|.+.|++..... -  +.....+--+.-++.-.+++++|.+.|..+.+.. ..+..+|..+..+ +..
T Consensus       274 gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~  352 (468)
T PF10300_consen  274 GRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLM  352 (468)
T ss_pred             HHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHh
Confidence            355677899999999999766321 0  1223345556777888999999999999999753 3345555544443 456


Q ss_pred             cCCh-------HHHHHHHHHHhhc
Q 023133          256 MGKV-------DLAMTIFEEMNSS  272 (287)
Q Consensus       256 ~g~~-------~~a~~~~~~~~~~  272 (287)
                      .|+.       ++|.++|.++...
T Consensus       353 l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  353 LGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             hccchhhhhhHHHHHHHHHHHHHH
Confidence            7777       8999999988443

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.93  E-value=0.15  Score=40.84  Aligned_cols=216  Identities=14%  Similarity=0.102  Sum_probs=123.7

Q ss_pred             hcCChhHHHHHHHHHHHhcCCCCHHH--HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSSRTLSSDC--YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA  122 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  122 (287)
                      -.|+++.|.+-|+.|...   |....  ...|.-..-+.|+.+.|.++-+..-... +.-...+...+...+..|+|+.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            346666666666666531   21111  1112222234566666666655554443 33345566666666666666666


Q ss_pred             HHHHHHHhcC---------------------------------------CCCCCHhh-HHHHHHHHHhcCCHHHHHHHHH
Q 023133          123 LLIFDHIKGL---------------------------------------KCKPDLIT-YNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus       123 ~~~~~~~~~~---------------------------------------~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      +++++.-...                                       .+.||..- --.-..++.+.|+..++-.+++
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            6666543321                                       11333322 1223456777888888888888


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh-CCCcC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE-SGIKP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      .+-+....|+.  +  .+..+.+.|+  .+..-+++..+ ..++| +..+-..+..+-...|++..|..--+...+  ..
T Consensus       288 ~aWK~ePHP~i--a--~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~  359 (531)
T COG3898         288 TAWKAEPHPDI--A--LLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EA  359 (531)
T ss_pred             HHHhcCCChHH--H--HHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hC
Confidence            88776555542  2  2222334443  34443433321 11233 455666677777888888888777666665  46


Q ss_pred             cchHhHHHHHHHHH-hcCChHHHHHHHHHHhhc
Q 023133          241 PSIYVYRSLIDNLK-KMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       241 ~~~~~~~~li~~~~-~~g~~~~a~~~~~~~~~~  272 (287)
                      |....|..|.+.-. ..|+-.++..++-+..+.
T Consensus       360 pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         360 PRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             chhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            88888888887654 459999999999988776

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.92  E-value=0.069  Score=43.72  Aligned_cols=63  Identities=10%  Similarity=0.021  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESI---IVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      ...++.+..+|...|++++|+..|++.++... .+.   .+|..+..+|...|+.++|++.+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~P-d~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNP-NPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555555566666666666666666555541 222   2355566666666666666666655554

>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=96.90  E-value=0.2  Score=41.80  Aligned_cols=108  Identities=14%  Similarity=0.146  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNL  183 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  183 (287)
                      ...+.++..+-+.|..+.|+++...-.            .-.....+.|+.+.|.++.++.      ++...|..|....
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHH
Confidence            345556666666666666665543211            1223344566666665544322      2445666666666


Q ss_pred             HhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       184 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      .+.|+++-|.+.|.+..+         |..|+-.|.-.|+.+.-.++.+....+|
T Consensus       358 L~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  358 LRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            666666666666655431         3344445555666666666665555544

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.89  E-value=0.016  Score=44.06  Aligned_cols=117  Identities=15%  Similarity=0.230  Sum_probs=80.7

Q ss_pred             CCcHHHHHHHHHHHHh-----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh
Q 023133          100 PESIIVVNRIIFAFAK-----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFI  174 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  174 (287)
                      +.|..+|-..+..+..     .+.++-....++.|.+.|+..|..+|+.|+..+-+-                .+.|. .
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKg----------------kfiP~-n  126 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKG----------------KFIPQ-N  126 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCccc----------------ccccH-H
Confidence            5677788888877764     356777788889999999999999999988765432                22232 2


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI-EESLRLFNDMK  235 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~  235 (287)
                      .+-.+.-.|-+..  +-++.++++|...|+.||..+-..|++++.+.+-. .+..+++-.|.
T Consensus       127 vfQ~~F~HYP~QQ--~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmP  186 (406)
T KOG3941|consen  127 VFQKVFLHYPQQQ--NCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMP  186 (406)
T ss_pred             HHHHHHhhCchhh--hHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhh
Confidence            2333333333322  45788999999999999999999999999887753 33344444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.87  E-value=0.0026  Score=33.79  Aligned_cols=34  Identities=15%  Similarity=0.196  Sum_probs=24.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      ++..+...|.+.|++++|.++|+++.+..|+++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~   36 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPE   36 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence            4566777777777777777777777777776653

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.85  E-value=0.076  Score=36.24  Aligned_cols=19  Identities=16%  Similarity=0.198  Sum_probs=14.9

Q ss_pred             hHHHHHHHHHHhhcCCCCC
Q 023133          259 VDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       259 ~~~a~~~~~~~~~~~~~~~  277 (287)
                      ...|+.-|+++.+..|+..
T Consensus       115 ~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen  115 ARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHHHHHHHHHHHHCcCCh
Confidence            5588888888888888753

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.049  Score=43.53  Aligned_cols=139  Identities=9%  Similarity=0.012  Sum_probs=92.9

Q ss_pred             HHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 023133           41 VASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE  120 (287)
Q Consensus        41 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  120 (287)
                      ..+.+.|++..|...|++.... +            -+.+.-+.++.....        ..-..+++.+..+|.+.+++.
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~-l------------~~~~~~~~ee~~~~~--------~~k~~~~lNlA~c~lKl~~~~  274 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSF-L------------EYRRSFDEEEQKKAE--------ALKLACHLNLAACYLKLKEYK  274 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHH-h------------hccccCCHHHHHHHH--------HHHHHHhhHHHHHHHhhhhHH
Confidence            4567788888888877776532 0            011111112111111        123456778888999999999


Q ss_pred             HHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc-hHHHHHHHHHH
Q 023133          121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR-LDLCLIYFREM  199 (287)
Q Consensus       121 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~  199 (287)
                      .|++.-...+..+ ++++-..-.-..++...|+++.|...|+.+.+.... |...-+.++..-.+... .+...++|..|
T Consensus       275 ~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  275 EAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999998876 567778778889999999999999999999986432 44444445544444443 34457888888


Q ss_pred             hhC
Q 023133          200 GES  202 (287)
Q Consensus       200 ~~~  202 (287)
                      ...
T Consensus       353 F~k  355 (397)
T KOG0543|consen  353 FAK  355 (397)
T ss_pred             hhc
Confidence            753

>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=96.77  E-value=0.08  Score=35.41  Aligned_cols=137  Identities=16%  Similarity=0.193  Sum_probs=76.5

Q ss_pred             hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhH---HHHHHHHHhcCCHH
Q 023133           79 IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITY---NIVLDILGRVGRVN  155 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~  155 (287)
                      .-.|..++..+++.+.....   +..-+|-+|--....-+-+-..++++.+-+   ..|....   ..++.+|...|.  
T Consensus        13 ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDis~C~NlKrVi~C~~~~n~--   84 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDISKCGNLKRVIECYAKRNK--   84 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhh---hcCchhhcchHHHHHHHHHhcc--
Confidence            34577777777777776643   333344444333333444555555555543   3444332   233444433332  


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                                      +.......+......|+-+.-.+++..+.+.+ .+++...-.+..+|.+.|+..++-+++.+.-
T Consensus        85 ----------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   85 ----------------LSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             ------------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             ----------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence                            33445566777778888888888888877543 6777778888888888888888888888888


Q ss_pred             hCCCC
Q 023133          236 QQQIR  240 (287)
Q Consensus       236 ~~~~~  240 (287)
                      +.|++
T Consensus       148 ekG~k  152 (161)
T PF09205_consen  148 EKGLK  152 (161)
T ss_dssp             HTT-H
T ss_pred             HhchH
Confidence            87753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.74  E-value=0.2  Score=43.27  Aligned_cols=87  Identities=14%  Similarity=0.256  Sum_probs=45.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHH----
Q 023133          137 DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYT----  212 (287)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----  212 (287)
                      +....-.+..++.+.|.-++|.+.+-+...    |     ...+..|...++|.+|.++-++..    -|.+.|.-    
T Consensus       851 ~s~llp~~a~mf~svGMC~qAV~a~Lr~s~----p-----kaAv~tCv~LnQW~~avelaq~~~----l~qv~tliak~a  917 (1189)
T KOG2041|consen  851 DSELLPVMADMFTSVGMCDQAVEAYLRRSL----P-----KAAVHTCVELNQWGEAVELAQRFQ----LPQVQTLIAKQA  917 (1189)
T ss_pred             ccchHHHHHHHHHhhchHHHHHHHHHhccC----c-----HHHHHHHHHHHHHHHHHHHHHhcc----chhHHHHHHHHH
Confidence            444455566666666666666655533211    1     234555666667767666655443    12222211    


Q ss_pred             ----------HHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          213 ----------ALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       213 ----------~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                                --|..+.+.|++-.|.+++.+|.+
T Consensus       918 aqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  918 AQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             HHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence                      123445566666666666666653

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.73  E-value=0.29  Score=41.30  Aligned_cols=164  Identities=14%  Similarity=0.026  Sum_probs=95.3

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH------HHHHHHHHHHhc----cCChHHHHHHHHHHHhcCCCCcHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS------DCYTNFARAFIM----TDDCTQLLIFIEEVVQIASPESII  104 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  104 (287)
                      ....++...+=.||-+.+++.+.+..+.+---.+      -.|+..+..++.    ..+.+.+.++++.+.+.- |.+..
T Consensus       190 ~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y-P~s~l  268 (468)
T PF10300_consen  190 KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY-PNSAL  268 (468)
T ss_pred             HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC-CCcHH
Confidence            4555666666678888888888776553211111      123333333332    456677888888887763 33333


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCC-CCC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLK-CKP--DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                      ..-.-.+.+...|++++|++.|++..... --+  ....+--+.-++.-..+|++|.+.|..+.+.+-. +...|..+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHH
Confidence            33334566677888888888888654311 011  2223344555667788888888888888775432 4444444433


Q ss_pred             H-HHhcCch-------HHHHHHHHHHh
Q 023133          182 N-LRKIRRL-------DLCLIYFREMG  200 (287)
Q Consensus       182 ~-~~~~~~~-------~~a~~~~~~~~  200 (287)
                      + +...++.       ++|.++|.+..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 3345556       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.

>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=96.72  E-value=0.19  Score=39.16  Aligned_cols=51  Identities=12%  Similarity=0.124  Sum_probs=28.6

Q ss_pred             HhcCChhHHHHHHHHHhhcC-CCCchhHHH-------HHHHHhhcC-ChhHHHHHHHHHH
Q 023133           10 CKAGNVSAAVRLLQSLRDKN-IFLPNAYNC-------VLVASAETN-DIDLSFQILKDLL   60 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~-------l~~~~~~~~-~~~~a~~~~~~~~   60 (287)
                      .+.|+.+.|...+.+..... ..++.....       +.....+.+ +++.|...+++..
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~   63 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAY   63 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHH
Confidence            46788888888888876654 333322222       222233444 6666666655543

It is also involved in sporulation [].

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.67  E-value=0.17  Score=37.64  Aligned_cols=226  Identities=15%  Similarity=0.134  Sum_probs=146.4

Q ss_pred             cCChhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHhc-CCCCcHHHHHHHHHHHHhcCCHHHHH
Q 023133           46 TNDIDLSFQILKDLLVSSRTL-SSDCYTNFARAFIMTDDCTQLLIFIEEVVQI-ASPESIIVVNRIIFAFAKSRQIEKAL  123 (287)
Q Consensus        46 ~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~  123 (287)
                      .+....+...+.......... ...........+...+++..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            344555555555555432221 2456666677777788888888887777652 23455666777777777788888888


Q ss_pred             HHHHHHhcCCCCCCHhhHHHHHH-HHHhcCCHHHHHHHHHHHHHcCC--CCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          124 LIFDHIKGLKCKPDLITYNIVLD-ILGRVGRVNDMLNEFASMKEAGV--VPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      ..+.........+ ......... .+...|+++.|...+........  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888877653222 122222333 67788888888888888755221  1123334444444667788888888888887


Q ss_pred             hCCCcC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          201 ESGIKP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       201 ~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ... .. ....+..+...+...++++.+...+......  .|+ ...+..+...+...|..+++...+.+.....|.
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            653 22 3567777788888888888888888888764  233 344444555555667788888888888777664

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.65  E-value=0.11  Score=35.64  Aligned_cols=85  Identities=11%  Similarity=0.074  Sum_probs=38.9

Q ss_pred             HHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 023133           37 NCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS  116 (287)
Q Consensus        37 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  116 (287)
                      ..++..+.+.+.+.....+++.+...+ ..+...++.++..+++.+ .......++.   .   .+..-...++..|.+.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~---~---~~~yd~~~~~~~c~~~   82 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN---K---SNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh---c---cccCCHHHHHHHHHHc
Confidence            344444444455555555555555444 234445555555555432 2222233321   0   1112223345555555


Q ss_pred             CCHHHHHHHHHHH
Q 023133          117 RQIEKALLIFDHI  129 (287)
Q Consensus       117 ~~~~~a~~~~~~~  129 (287)
                      +.++++..++.++
T Consensus        83 ~l~~~~~~l~~k~   95 (140)
T smart00299       83 KLYEEAVELYKKD   95 (140)
T ss_pred             CcHHHHHHHHHhh
Confidence            5555565555554

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.61  E-value=0.39  Score=41.23  Aligned_cols=199  Identities=12%  Similarity=0.138  Sum_probs=112.1

Q ss_pred             HHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC----CCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 023133           20 RLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRT----LSSDCYTNFARAFIMTDDCTQLLIFIEEVV   95 (287)
Q Consensus        20 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   95 (287)
                      .-+++++++|..|...  .+...++-.|++.+|-++|.+--..+-.    .|..+|. ...-+...|..++-..+.++-.
T Consensus       621 ~EL~~~k~rge~P~~i--LlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD-~aQE~~~~g~~~eKKmL~RKRA  697 (1081)
T KOG1538|consen  621 SELEERKKRGETPNDL--LLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD-YAQEFLGSGDPKEKKMLIRKRA  697 (1081)
T ss_pred             HHHHHHHhcCCCchHH--HHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH-HHHHHhhcCChHHHHHHHHHHH
Confidence            3355677777766533  2344555567777777777553211100    0111111 2233444454444433333211


Q ss_pred             h--cCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHH------HHhcCCC---CCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           96 Q--IAS-PESIIVVNRIIFAFAKSRQIEKALLIFD------HIKGLKC---KPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        96 ~--~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      +  ..+ +|.     +...++...|+.++|..+.-      -+.+.+.   ..+..+...+..-+.+...+.-|-++|..
T Consensus       698 ~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k  772 (1081)
T KOG1538|consen  698 DWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLK  772 (1081)
T ss_pred             HHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHH
Confidence            1  111 222     33445566677777766531      1222111   23444555555555567778888888888


Q ss_pred             HHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH-----------HHHHHHHHHhcCCHHHHHHHHH
Q 023133          164 MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT-----------YTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       164 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----------~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      |-+.         ..+++.....++|++|..+-+...+.  .||+..           |.-.-.+|-+.|+-.+|.++++
T Consensus       773 ~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLe  841 (1081)
T KOG1538|consen  773 MGDL---------KSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLE  841 (1081)
T ss_pred             hccH---------HHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHH
Confidence            7543         35777888899999999998887764  455431           2233457889999999999999


Q ss_pred             HHHhC
Q 023133          233 DMKQQ  237 (287)
Q Consensus       233 ~~~~~  237 (287)
                      ++...
T Consensus       842 QLtnn  846 (1081)
T KOG1538|consen  842 QLTNN  846 (1081)
T ss_pred             Hhhhh
Confidence            88654

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.59  E-value=0.25  Score=38.77  Aligned_cols=22  Identities=14%  Similarity=0.430  Sum_probs=11.3

Q ss_pred             HHHHHHHHHhhCCCcCCHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYT  212 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~  212 (287)
                      .+.++++.+.+.|+++....|.
T Consensus       200 r~~~l~~~l~~~~~kik~~~yp  221 (297)
T PF13170_consen  200 RVIELYNALKKNGVKIKYMHYP  221 (297)
T ss_pred             HHHHHHHHHHHcCCcccccccc
Confidence            4455555555555555544443

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.53  E-value=0.35  Score=39.65  Aligned_cols=263  Identities=13%  Similarity=0.121  Sum_probs=155.1

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCch------hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHH--Hhc
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPN------AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARA--FIM   80 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~   80 (287)
                      +-+.+++++|.++|.++-+.....+.      .-+.++++|... +.+.....+..+.+.  .| ...|..+..+  +.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHH
Confidence            45688999999999998766544431      234566666543 355555555555443  23 2234334433  457


Q ss_pred             cCChHHHHHHHHHHHhc--CCC------------CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC----CCCCHhhHH
Q 023133           81 TDDCTQLLIFIEEVVQI--ASP------------ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK----CKPDLITYN  142 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~--~~~------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~  142 (287)
                      .+.+..|.+.+......  +..            +|-..-+..++.+...|++.++..+++++...=    ..-+..+|+
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd  171 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYD  171 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHH
Confidence            78899988887665543  211            223334567788899999999999998876532    235778888


Q ss_pred             HHHHHHHhcC---------------CHHHHHHHHHHHHHc------CCCCChhHHHHHHHHHHhc--CchHHHHHHHHHH
Q 023133          143 IVLDILGRVG---------------RVNDMLNEFASMKEA------GVVPDFISYNTLLNNLRKI--RRLDLCLIYFREM  199 (287)
Q Consensus       143 ~l~~~~~~~~---------------~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~  199 (287)
                      .++-.+++.-               .++.+.-+..++...      .+.|.......++....-.  ....--.+++...
T Consensus       172 ~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~W  251 (549)
T PF07079_consen  172 RAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENW  251 (549)
T ss_pred             HHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHH
Confidence            7555544321               133333334444322      2344444445554443322  1222333444444


Q ss_pred             hhCCCcCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc----chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          200 GESGIKPDLL-TYTALIDSFGRTGNIEESLRLFNDMKQQQIRP----SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       200 ~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      ...-+.|+-. ....|...+.+  +.+++..+.+.+....+.+    -+.++..++....+.++...|.+.+.-+.-..|
T Consensus       252 e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp  329 (549)
T PF07079_consen  252 ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDP  329 (549)
T ss_pred             HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC
Confidence            4444566643 33445555554  5666666666655432221    346788888999999999999999998887777


Q ss_pred             CCC
Q 023133          275 DLA  277 (287)
Q Consensus       275 ~~~  277 (287)
                      ...
T Consensus       330 ~~s  332 (549)
T PF07079_consen  330 RIS  332 (549)
T ss_pred             cch
Confidence            654

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=96.49  E-value=0.13  Score=34.41  Aligned_cols=137  Identities=12%  Similarity=0.179  Sum_probs=62.8

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHH---HHHHHHHhccCChH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCY---TNFARAFIMTDDCT   85 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~   85 (287)
                      +.-.|.+++-.++..+........  -+|.+|--....-+-+-..++++..   |--.|...+   ..++.++...+   
T Consensus        12 ~ildG~V~qGveii~k~v~Ssni~--E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis~C~NlKrVi~C~~~~n---   83 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSSNIK--EYNWVICNIIDAADCDYVVETLDSI---GKIFDISKCGNLKRVIECYAKRN---   83 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS-HH--HHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GGG-S-THHHHHHHHHTT---
T ss_pred             HHHhchHHHHHHHHHHHcCcCCcc--ccceeeeecchhhchhHHHHHHHHH---hhhcCchhhcchHHHHHHHHHhc---
Confidence            445788999999998877655333  4555554444443334444444333   333333222   11222222222   


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                                     .+.......++.....|.-+.-.+++..+.+.+ .++....-.+..+|.+.|+..++.+++.+.-
T Consensus        84 ---------------~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   84 ---------------KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             ------------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             ---------------chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence                           122333444555555566666666665554322 4555555555666666666666666666655


Q ss_pred             HcCC
Q 023133          166 EAGV  169 (287)
Q Consensus       166 ~~~~  169 (287)
                      +.|+
T Consensus       148 ekG~  151 (161)
T PF09205_consen  148 EKGL  151 (161)
T ss_dssp             HTT-
T ss_pred             Hhch
Confidence            5554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=96.49  E-value=0.054  Score=38.95  Aligned_cols=107  Identities=13%  Similarity=0.080  Sum_probs=74.2

Q ss_pred             HHHHhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHhc
Q 023133           22 LQSLRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTDDCTQLLIFIEEVVQI   97 (287)
Q Consensus        22 ~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   97 (287)
                      ++...+......  ..+..+...|.+.|+.+.|++.|.++.+....+.  ...+-.+++.....+++..+...+.++...
T Consensus        23 lk~~~~n~~kesir~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   23 LKDAKSNLGKESIRMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            333333433333  6899999999999999999999999987755544  346677888899999999999988776543


Q ss_pred             CCC---Cc----HHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133           98 ASP---ES----IIVVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus        98 ~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      --.   .+    ..+|..+.  +...+++.+|-+.|-...
T Consensus       103 ~~~~~d~~~~nrlk~~~gL~--~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  103 IEKGGDWERRNRLKVYEGLA--NLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HhccchHHHHHHHHHHHHHH--HHHhchHHHHHHHHHccC
Confidence            212   11    12333332  445789999988886654

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.47  E-value=0.44  Score=43.72  Aligned_cols=78  Identities=6%  Similarity=0.036  Sum_probs=39.3

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          149 GRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      .....+++|.-.|+..-+.         ..-+.+|...|+|.+|..+..++.... .--..+-..|+.-+...+++-+|-
T Consensus       950 ~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~~-de~~~~a~~L~s~L~e~~kh~eAa 1019 (1265)
T KOG1920|consen  950 REELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEGK-DELVILAEELVSRLVEQRKHYEAA 1019 (1265)
T ss_pred             HHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHcccchhHH
Confidence            3445555555555443221         223555666666666666666554221 001112244566666666666666


Q ss_pred             HHHHHHHh
Q 023133          229 RLFNDMKQ  236 (287)
Q Consensus       229 ~~~~~~~~  236 (287)
                      ++..+...
T Consensus      1020 ~il~e~~s 1027 (1265)
T KOG1920|consen 1020 KILLEYLS 1027 (1265)
T ss_pred             HHHHHHhc
Confidence            66665543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.47  E-value=0.0054  Score=32.57  Aligned_cols=28  Identities=18%  Similarity=0.132  Sum_probs=15.0

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHh
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVS   62 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~   62 (287)
                      ++..+...|.+.|++++|.++|++.++.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3445555555555555555555555543

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.46  E-value=0.24  Score=37.05  Aligned_cols=117  Identities=12%  Similarity=0.164  Sum_probs=59.4

Q ss_pred             hcCCHHHHHHHHHHHhc---CCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH----HcCCCCCh-hHHHHHHHHHH
Q 023133          115 KSRQIEKALLIFDHIKG---LKC--KPDLITYNIVLDILGRVGRVNDMLNEFASMK----EAGVVPDF-ISYNTLLNNLR  184 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~-~~~~~l~~~~~  184 (287)
                      ..-++++|+++|++...   .+-  .--...+...-..+.+...+++|-..|.+-.    +..--++. ..|...|-.+.
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            34455556655554321   110  0112234444555666666666655544421    11111222 34555555666


Q ss_pred             hcCchHHHHHHHHHHhhCC---CcCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          185 KIRRLDLCLIYFREMGESG---IKPDLLTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      ...++..|..+++.-.+.+   -+-+..+...|+.+|- .||.+++.+++.
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            6677777777777744322   2334556666776664 467766665543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.3  Score=37.67  Aligned_cols=149  Identities=11%  Similarity=0.064  Sum_probs=99.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc
Q 023133          109 IIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  188 (287)
                      -.......|++.+|...|+...... +-+...--.+..+|...|+.+.|..++..+...--.........-+..+.+...
T Consensus       140 ~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         140 EAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             HhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhc
Confidence            3445678899999999998887653 223455667888999999999999999988654322222333334555556666


Q ss_pred             hHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCcchHhHHHHHHHHHhcCChH
Q 023133          189 LDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ-IRPSIYVYRSLIDNLKKMGKVD  260 (287)
Q Consensus       189 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~  260 (287)
                      ..+...+-.+.-..  +-|...-..+...+...|+.++|.+.+-.+.+++ -.-|...-..++..+.--|.-+
T Consensus       219 ~~~~~~l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~D  289 (304)
T COG3118         219 TPEIQDLQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPAD  289 (304)
T ss_pred             CCCHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCC
Confidence            66666666665543  3366677788888999999999988777766542 1234455566666665555333

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.41  E-value=0.039  Score=42.39  Aligned_cols=77  Identities=9%  Similarity=0.062  Sum_probs=47.2

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHh-----cCCCCcHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQ-----IASPESIIVVNRI  109 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  109 (287)
                      ++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..++++.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            55666666666666666666666666542 44566666666666666666666666665543     4566666665555


Q ss_pred             HHH
Q 023133          110 IFA  112 (287)
Q Consensus       110 ~~~  112 (287)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            554

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.37  E-value=0.16  Score=34.00  Aligned_cols=90  Identities=16%  Similarity=0.099  Sum_probs=42.6

Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh---hHHHHHHHHHhcCC
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI---TYNIVLDILGRVGR  153 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~  153 (287)
                      +++..|+.+.|++.|.+.+..- |.....||.-..++.-.|+.++|+.=+++..+..-..+..   .|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            3445555555555555555443 3444555555555555555555555555544432111221   22222334445555


Q ss_pred             HHHHHHHHHHHHHc
Q 023133          154 VNDMLNEFASMKEA  167 (287)
Q Consensus       154 ~~~a~~~~~~~~~~  167 (287)
                      -+.|..-|+...+.
T Consensus       131 dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  131 DDAARADFEAAAQL  144 (175)
T ss_pred             hHHHHHhHHHHHHh
Confidence            55555555444333

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.35  E-value=0.48  Score=39.37  Aligned_cols=58  Identities=19%  Similarity=0.181  Sum_probs=32.9

Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCC-CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESG-IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +..++-+.|+.++|.+.+++|.+.. ...+......|+.++...+.+.++..++.+..+
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            4444555666666776666665431 111223445566666666666666666666543

The molecular function of this protein is uncertain.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.27  E-value=0.43  Score=37.98  Aligned_cols=226  Identities=13%  Similarity=0.143  Sum_probs=133.2

Q ss_pred             HhcCChhHHHHHHHHHhhcCC--CCc-hhHHHHHHHHhhcCChhHHHHHHHHHH----Hhc-CCCCHHHHHHHHHHHhcc
Q 023133           10 CKAGNVSAAVRLLQSLRDKNI--FLP-NAYNCVLVASAETNDIDLSFQILKDLL----VSS-RTLSSDCYTNFARAFIMT   81 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~-~~~~~~~~~~l~~~~~~~   81 (287)
                      ....+.++|+..+.....+-.  ... .++..+..+.++.|.+++++..--.-+    +.. ...--..|..+.+++.+.
T Consensus        17 y~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   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            356677888888877655421  112 567778888888888887765422111    110 011123445555666666


Q ss_pred             CChHHHHHHHHHHHhc-CCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC---CC--CHhhHHHHHHHHHhcC
Q 023133           82 DDCTQLLIFIEEVVQI-ASPE---SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC---KP--DLITYNIVLDILGRVG  152 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~  152 (287)
                      -++.+++.+-+.-... |..+   .-...-++..++...+.++++++.|+...+...   .|  ....+-.|.+.|.+..
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            6666666665544322 1111   113344566777778889999999887654211   12  2347888889999999


Q ss_pred             CHHHHHHHHHHHHH----cCCCCChhHHH-----HHHHHHHhcCchHHHHHHHHHHh----hCCCcCC-HHHHHHHHHHH
Q 023133          153 RVNDMLNEFASMKE----AGVVPDFISYN-----TLLNNLRKIRRLDLCLIYFREMG----ESGIKPD-LLTYTALIDSF  218 (287)
Q Consensus       153 ~~~~a~~~~~~~~~----~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~-~~~~~~l~~~~  218 (287)
                      ++++|.-+..+..+    .++..-..-|.     .+.-++...|....|.+.-++..    +.|-++. ......+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            99988877666533    23221111222     23345666777777777776654    3442322 23455677888


Q ss_pred             HhcCCHHHHHHHHHHHH
Q 023133          219 GRTGNIEESLRLFNDMK  235 (287)
Q Consensus       219 ~~~g~~~~a~~~~~~~~  235 (287)
                      ...|+.+.|+.-|+...
T Consensus       257 R~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HhcccHhHHHHHHHHHH
Confidence            89999998887777654

>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=96.27  E-value=0.39  Score=37.48  Aligned_cols=223  Identities=12%  Similarity=0.114  Sum_probs=127.8

Q ss_pred             hhcCChhHHHHHHHHHHHhcCCCCHHHHHH-------HHHHHhccC-ChHHHHHHHHHHHhc----C----CCCc-----
Q 023133           44 AETNDIDLSFQILKDLLVSSRTLSSDCYTN-------FARAFIMTD-DCTQLLIFIEEVVQI----A----SPES-----  102 (287)
Q Consensus        44 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~-~~~~a~~~~~~~~~~----~----~~~~-----  102 (287)
                      .+.|+++.|..++.+........++.....       +.......+ +++.|..++++..+.    +    ..++     
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            478999999999988865431222222222       233334456 899998888876544    1    1222     


Q ss_pred             HHHHHHHHHHHHhcCCHH---HHHHHHHHHhcCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIE---KALLIFDHIKGLKCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                      ..++..++.+|...+..+   +|..+++.+....  |+ ...+-.-+..+.+.++.+++.+++..|...- .-....+..
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~  160 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHH
Confidence            356777888888877755   4566666665442  33 4455556677777899999999999998762 213344554


Q ss_pred             HHHHH---HhcCchHHHHHHHHHHhhCCCcCCHH-HHHH-HHH---HHHhcCC------HHHHHHHHHHHHhC-CCCcch
Q 023133          179 LLNNL---RKIRRLDLCLIYFREMGESGIKPDLL-TYTA-LID---SFGRTGN------IEESLRLFNDMKQQ-QIRPSI  243 (287)
Q Consensus       179 l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-l~~---~~~~~g~------~~~a~~~~~~~~~~-~~~~~~  243 (287)
                      ++..+   .. .....+...+..+....+.|... .... ++.   ...+.++      .+....+++...+. +.+.+.
T Consensus       161 ~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  161 ILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            44444   33 33456667776666544455443 1111 111   1122222      44455555543322 223333


Q ss_pred             HhHH---HH----HHHHHhcCChHHHHHHHHHHh
Q 023133          244 YVYR---SL----IDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       244 ~~~~---~l----i~~~~~~g~~~~a~~~~~~~~  270 (287)
                      .+-.   ++    ...+.+.+++++|.++|+-..
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            3322   22    234668899999999998654

It is also involved in sporulation [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.27  E-value=0.39  Score=39.60  Aligned_cols=81  Identities=14%  Similarity=-0.002  Sum_probs=34.1

Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +|.++.++..+.+ +-|......+..+....++++.|...|++....  .|| ..+|......+.-+|+.++|.+.+++.
T Consensus       322 ~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~a  398 (458)
T PRK11906        322 KALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKS  398 (458)
T ss_pred             HHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444444444433 334444444444444444444455555444432  222 223333333334444555555555444


Q ss_pred             hhcCC
Q 023133          270 NSSLS  274 (287)
Q Consensus       270 ~~~~~  274 (287)
                      .+..|
T Consensus       399 lrLsP  403 (458)
T PRK11906        399 LQLEP  403 (458)
T ss_pred             hccCc
Confidence            44444

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.25  E-value=0.076  Score=42.73  Aligned_cols=236  Identities=9%  Similarity=0.020  Sum_probs=140.3

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHH--Hhhc--CCCCc--hhHHHHHHHHhhcCChhHHHHHHHHH----HHhcCC-CCHH
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQS--LRDK--NIFLP--NAYNCVLVASAETNDIDLSFQILKDL----LVSSRT-LSSD   69 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~--~~~~--~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~   69 (287)
                      +|+.|..+|.-.+++++|++....  ...+  |-...  .+-..|...+-..|.+++|+-...+-    .+.|-. ....
T Consensus        57 IYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~R  136 (639)
T KOG1130|consen   57 IYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESR  136 (639)
T ss_pred             HHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhH
Confidence            588888999999999999986432  1111  11111  23344555555667777776443322    122211 1233


Q ss_pred             HHHHHHHHHhccCC--------------------hHHHHHHHHHHHh----cCCC-CcHHHHHHHHHHHHhcCCHHHHHH
Q 023133           70 CYTNFARAFIMTDD--------------------CTQLLIFIEEVVQ----IASP-ESIIVVNRIIFAFAKSRQIEKALL  124 (287)
Q Consensus        70 ~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~----~~~~-~~~~~~~~l~~~~~~~~~~~~a~~  124 (287)
                      .+..+...|...|+                    ++.|.++|.+-++    .|-. .--..|..|...|.-.|+++.|+.
T Consensus       137 AlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~  216 (639)
T KOG1130|consen  137 ALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIH  216 (639)
T ss_pred             HHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHH
Confidence            44445555544332                    2334444443222    1100 112456677777778899999987


Q ss_pred             HHHHH----hcCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHH----HcCC-CCChhHHHHHHHHHHhcCchHHHHH
Q 023133          125 IFDHI----KGLKCK-PDLITYNIVLDILGRVGRVNDMLNEFASMK----EAGV-VPDFISYNTLLNNLRKIRRLDLCLI  194 (287)
Q Consensus       125 ~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  194 (287)
                      ..+.-    .+.|-. .....+..+..++.-.|+++.|.+.|+.-.    +.|- .....+..+|...|.-..++++|+.
T Consensus       217 ~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~  296 (639)
T KOG1130|consen  217 FHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAIT  296 (639)
T ss_pred             HHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            76543    233321 123467788888889999999999887743    3222 1233455667778888888899998


Q ss_pred             HHHHHhh----CC-CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          195 YFREMGE----SG-IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       195 ~~~~~~~----~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ++.+-..    .+ ..-....+..|..+|...|..++|+.+.+...+
T Consensus       297 Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  297 YHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            8876432    11 122446788899999999999999888776653

>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=96.24  E-value=0.24  Score=35.61  Aligned_cols=98  Identities=10%  Similarity=-0.014  Sum_probs=67.9

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-HhhHH--H
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPE--SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-LITYN--I  143 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~--~  143 (287)
                      ..+..+..-|.+.|+.+.|.+.+.++.+....+  -...+-.+|....-.+++..+...+.+....--.++ ...-+  .
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            456778889999999999999999988765333  345677888999999999999988877654311111 11111  1


Q ss_pred             HHH--HHHhcCCHHHHHHHHHHHHH
Q 023133          144 VLD--ILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       144 l~~--~~~~~~~~~~a~~~~~~~~~  166 (287)
                      ...  .+...+++.+|-+.|-+...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            111  23457889999888877643

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.

>PRK11906 transcriptional regulator; Provisional

Probab=96.16  E-value=0.6  Score=38.57  Aligned_cols=80  Identities=11%  Similarity=0.066  Sum_probs=45.0

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL-ITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      ..+|.+.-++..+.+ +.|......+..+..-.++.+.|...|++....+  |+. .+|....-.+.-.|+.++|.+.++
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~--Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS--TDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC--CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344555555555655 4556665556555556666666666666666552  332 244444444455666666666666


Q ss_pred             HHHH
Q 023133          163 SMKE  166 (287)
Q Consensus       163 ~~~~  166 (287)
                      +...
T Consensus       397 ~alr  400 (458)
T PRK11906        397 KSLQ  400 (458)
T ss_pred             HHhc
Confidence            6444

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.16  E-value=0.22  Score=33.40  Aligned_cols=91  Identities=18%  Similarity=0.185  Sum_probs=48.3

Q ss_pred             HHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHH---HHHHHHhcCC
Q 023133           42 ASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNR---IIFAFAKSRQ  118 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~  118 (287)
                      +.+..|+.+.|++.|.+.+.. .+-....||.-..++.-.|+.++|+.-+++..+..-+.+...+.+   -...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            445556666666666665543 233455666666666666666666666665555432233222222   2233555566


Q ss_pred             HHHHHHHHHHHhcCC
Q 023133          119 IEKALLIFDHIKGLK  133 (287)
Q Consensus       119 ~~~a~~~~~~~~~~~  133 (287)
                      .+.|..=|+...+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            666666666555544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.13  E-value=0.12  Score=39.78  Aligned_cols=77  Identities=16%  Similarity=0.202  Sum_probs=41.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh-----CCCcCCHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE-----SGIKPDLLTYTAL  214 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  214 (287)
                      ++..++..+...|+.+.+.+.++++...... +...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            4445555555555555555555555554332 455555556666666655555555555432     4555555555444


Q ss_pred             HHH
Q 023133          215 IDS  217 (287)
Q Consensus       215 ~~~  217 (287)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.11  E-value=0.37  Score=35.71  Aligned_cols=222  Identities=14%  Similarity=0.123  Sum_probs=156.9

Q ss_pred             CChhHHHHHHHHHhhcCCCC--chhHHHHHHHHhhcCChhHHHHHHHHHHHh-cCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           13 GNVSAAVRLLQSLRDKNIFL--PNAYNCVLVASAETNDIDLSFQILKDLLVS-SRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      +....+...+..........  ...+......+...+.+..+...+...... ........+..........+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            45555666666665555442  257777888888999999999888887753 234455666667777788888999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHH-HHHhcCCHHHHHHHHHHHhcCCC--CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133           90 FIEEVVQIASPESIIVVNRIIF-AFAKSRQIEKALLIFDHIKGLKC--KPDLITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      .+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+.....
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            999988765333 222233333 78899999999999999865321  01233444444556788999999999999887


Q ss_pred             cCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          167 AGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       167 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .........+..+...+...++.+.+...+......  .|+ ...+..+...+...+..+++...+....+.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            633213567788888888899999999999998876  333 444555555555777899999999988875

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.11  E-value=0.45  Score=36.71  Aligned_cols=144  Identities=14%  Similarity=0.138  Sum_probs=77.3

Q ss_pred             HHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH
Q 023133           76 RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN  155 (287)
Q Consensus        76 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  155 (287)
                      ......+++.+|...|+...... +.+...--.++.+|...|+.+.|..++..+...--.........-|..+.+.....
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            34556677777777777776654 33345555667777777777777777777654311111112222233444444443


Q ss_pred             HHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC-CcCCHHHHHHHHHHHHhcCC
Q 023133          156 DMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESG-IKPDLLTYTALIDSFGRTGN  223 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~  223 (287)
                      +...+-..+-..   | |...-..+...+...|+.+.|.+.+-.+...+ -.-|...-..|+..+.--|.
T Consensus       221 ~~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         221 EIQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGP  287 (304)
T ss_pred             CHHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCC
Confidence            333333333332   3 45555556666777777777776665554321 12244455566666665553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.09  E-value=0.31  Score=38.35  Aligned_cols=150  Identities=8%  Similarity=-0.097  Sum_probs=88.9

Q ss_pred             cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH--HHH--HHHHHHHhccCChHHH
Q 023133           12 AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS--DCY--TNFARAFIMTDDCTQL   87 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~--~~l~~~~~~~~~~~~a   87 (287)
                      .|++.+|-..++++.+.-+..--++...=.+|.-.|+.......+++.+.. -.|+.  ..|  ..+.-++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            456666666677776655433245555556777777777777777766543 12222  122  2333445567788888


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP---DLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ++.-++..+.+ +.|.....++...+--.|+..++.++..+-...--..   -.+.|=...-.+...++++.|+++|+.
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            88877777776 5677777777777777788887777765543221000   111222223334555778888888765

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.09  E-value=0.51  Score=37.11  Aligned_cols=133  Identities=12%  Similarity=0.086  Sum_probs=86.9

Q ss_pred             hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc--cC----ChHHHHHHHHHHHhcCC---CCcHHHHHHHHHHHHhcCCH
Q 023133           49 IDLSFQILKDLLVSSRTLSSDCYTNFARAFIM--TD----DCTQLLIFIEEVVQIAS---PESIIVVNRIIFAFAKSRQI  119 (287)
Q Consensus        49 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~  119 (287)
                      +++.+.+++.|.+.|.+-+..+|-+.......  ..    ....+..+++.|.+..+   .++..++..++..  ..++.
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            45667888999999988887776553333222  22    34568889999988753   2444556666543  44443


Q ss_pred             ----HHHHHHHHHHhcCCCCCCHh--hHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCCChhHHHHHHHHH
Q 023133          120 ----EKALLIFDHIKGLKCKPDLI--TYNIVLDILGRVGR--VNDMLNEFASMKEAGVVPDFISYNTLLNNL  183 (287)
Q Consensus       120 ----~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  183 (287)
                          +.++.+|+.+.+.|+..+..  ....++........  ..++.++++.+.+.|+++....|..+.-..
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLa  227 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLA  227 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHH
Confidence                56778888888888766433  34444444333322  458889999999999998888777655433

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.08  E-value=0.27  Score=33.79  Aligned_cols=41  Identities=17%  Similarity=0.323  Sum_probs=18.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      ++..+...+.......+++.+...+ +.+...++.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            3334444444444444444444443 2344444444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.07  E-value=0.24  Score=38.53  Aligned_cols=48  Identities=13%  Similarity=0.194  Sum_probs=24.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      ++++++.++..=.+.|+-||..+++.++..+.+.++..+|.++...|.
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            444555555554555555555555555555555555555555444443

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.05  E-value=0.43  Score=35.83  Aligned_cols=207  Identities=11%  Similarity=0.113  Sum_probs=116.2

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..|.....+|....++++|...+.+..+. ..-+...|+       ....+++|.-+.+++.+.  +--...++.-..+|
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            45666667777777787777766665421 121222121       112234444444444432  22344566666777


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc---CC--CCChhHHHHHHHHHHhcCc
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA---GV--VPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~--~~~~~~~~~l~~~~~~~~~  188 (287)
                      ..+|.++.|-..+++.-+.                ..+-++++|+.+|++....   +-  .--...+...-..+++...
T Consensus       102 ~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~k  165 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEK  165 (308)
T ss_pred             HHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHH
Confidence            7777777766666554321                2344555666666554221   10  0112344555666777777


Q ss_pred             hHHHHHHHHHHh----hCCCcCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcchHhHHHHHHHHHhcCChH
Q 023133          189 LDLCLIYFREMG----ESGIKPDL-LTYTALIDSFGRTGNIEESLRLFNDMKQQ---QIRPSIYVYRSLIDNLKKMGKVD  260 (287)
Q Consensus       189 ~~~a~~~~~~~~----~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~~  260 (287)
                      +++|-..+.+-.    +..--++. ..|-..|-.+.-..|+..|.+.++.-.+.   .-.-+..+...|+.+| ..|+.+
T Consensus       166 f~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E  244 (308)
T KOG1585|consen  166 FTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIE  244 (308)
T ss_pred             hhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHH
Confidence            777766655432    11112222 23555566667778999999999985443   2234567888888887 668888


Q ss_pred             HHHHHHH
Q 023133          261 LAMTIFE  267 (287)
Q Consensus       261 ~a~~~~~  267 (287)
                      ++.+++.
T Consensus       245 ~~~kvl~  251 (308)
T KOG1585|consen  245 EIKKVLS  251 (308)
T ss_pred             HHHHHHc
Confidence            8877653

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.95  E-value=0.028  Score=27.59  Aligned_cols=31  Identities=16%  Similarity=0.194  Sum_probs=21.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+..+...+...|++++|.+.|++..+..|+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            4556666777777777777777777777665

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.91  E-value=0.69  Score=40.90  Aligned_cols=207  Identities=16%  Similarity=0.171  Sum_probs=113.1

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHH----HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHH
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFAR----AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIF  111 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  111 (287)
                      ...-+....+...++.|+.+.+.-     ..+..+...+..    -+.+.|++++|...+-+.+..- .|.     .++.
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~-----~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~l-e~s-----~Vi~  405 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQ-----HLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFL-EPS-----EVIK  405 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhc-----CCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccC-ChH-----HHHH
Confidence            444555566666666666554432     223333333333    3446677777777665554321 222     2445


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH
Q 023133          112 AFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL  191 (287)
Q Consensus       112 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  191 (287)
                      -|....++..--.+++.+.+.|+ .+...-..|+.+|.+.++.++-.++.+... .|..  ..-....+..+.+.+-.++
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~  481 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDE  481 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHH
Confidence            55666667777777777777774 455555677788888888777666655544 2221  1123455666666677777


Q ss_pred             HHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          192 CLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       192 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      |..+-.....     +......   .+-..+++++|++.+..+.-...-+....|..   .+.. ..+++...++-+.
T Consensus       482 a~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~slp~~e~l~~l~kyGk---~Ll~-h~P~~t~~ili~~  547 (933)
T KOG2114|consen  482 AELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISSLPISELLRTLNKYGK---ILLE-HDPEETMKILIEL  547 (933)
T ss_pred             HHHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhcCCHHHHHHHHHHHHH---HHHh-hChHHHHHHHHHH
Confidence            7666554432     2222222   34456888899888887652212222222322   2222 3455555555554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.89  E-value=0.85  Score=38.01  Aligned_cols=78  Identities=14%  Similarity=0.160  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC-CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CChhHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCK-PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PDFISYNTLLN  181 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  181 (287)
                      .+-..+..++.+.|+.++|++.|.+|.+.... ........|+.++...+.+.++..++.+..+...+ .-..+|+..+-
T Consensus       260 y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALL  339 (539)
T PF04184_consen  260 YAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALL  339 (539)
T ss_pred             hhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHH
Confidence            33345666777788888888888888654211 12335667888888888888888888886543221 12344555443

The molecular function of this protein is uncertain.

>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=95.88  E-value=0.36  Score=33.71  Aligned_cols=50  Identities=22%  Similarity=0.179  Sum_probs=22.5

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLL   60 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   60 (287)
                      +.++.+++..+++.+.-..+..+..-..-...+.+.|+|.+|..+|+++.
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELE   71 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            34455555555555544443333222222233444555555555555543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.78  E-value=1.2  Score=38.86  Aligned_cols=47  Identities=13%  Similarity=0.126  Sum_probs=28.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCcchHhHHHHHHHHHhcC
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQ-QIRPSIYVYRSLIDNLKKMG  257 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g  257 (287)
                      |..|.+--...|..+.|++.--.+.+. .+-|....|+.+.-+-+...
T Consensus      1024 FmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~r 1071 (1189)
T KOG2041|consen 1024 FMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVR 1071 (1189)
T ss_pred             HHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhh
Confidence            444555556678888887754444422 35677778877765544433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.76  E-value=0.036  Score=27.27  Aligned_cols=32  Identities=16%  Similarity=0.207  Sum_probs=20.9

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          244 YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       244 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+|..+..++...|++++|...|+++.+..|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            34566666777777777777777777666664

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 ....

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.75  E-value=0.44  Score=33.69  Aligned_cols=132  Identities=15%  Similarity=0.188  Sum_probs=68.7

Q ss_pred             HHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          124 LIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       124 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      +.++.+.+.+++|+...+..++..+.+.|++..    +..+...++-+|.......+-.+.  +....+.++--+|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-
Confidence            344555556666777777777777777776543    344445555555555444443332  2233344444344332 


Q ss_pred             CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          204 IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       204 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                         =...+..+++.+...|++-+|.++.+.....    +......++.+..+.++...-..+|+-.
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff  146 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFF  146 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHH
Confidence               0013445666677777777777777664322    1122244555555566655444444444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.69  E-value=0.88  Score=36.71  Aligned_cols=125  Identities=15%  Similarity=0.148  Sum_probs=85.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCC-ChhHHHHHHHHHHhc
Q 023133          109 IIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA-GVVP-DFISYNTLLNNLRKI  186 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~-~~~~~~~l~~~~~~~  186 (287)
                      -..++.+.|+..++-.+++.+-+....|+  .+  .+..+.+.|+.  +..-++..... .++| +..+...+..+....
T Consensus       269 AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia--~lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda  342 (531)
T COG3898         269 AARALFRDGNLRKGSKILETAWKAEPHPD--IA--LLYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDA  342 (531)
T ss_pred             HHHHHHhccchhhhhhHHHHHHhcCCChH--HH--HHHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhc
Confidence            44678899999999999999988743444  33  22334455543  33333332211 1233 456677788888889


Q ss_pred             CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHhCCCCc
Q 023133          187 RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR-TGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      |++..|..--+.....  .|....|..|.+.-.. .||-.++...+.+..+..-.|
T Consensus       343 ~e~~~ARa~Aeaa~r~--~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         343 GEFSAARAKAEAAARE--APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             cchHHHHHHHHHHhhh--CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            9999888777766554  7888889888887654 599999999999998753333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.66  E-value=0.87  Score=36.38  Aligned_cols=227  Identities=11%  Similarity=0.106  Sum_probs=136.1

Q ss_pred             hcCChhHHHHHHHHHHHhc--CCCCHHHHHHHHHHHhccCChHHHHHHHH----HHHhcC-CCCcHHHHHHHHHHHHhcC
Q 023133           45 ETNDIDLSFQILKDLLVSS--RTLSSDCYTNFARAFIMTDDCTQLLIFIE----EVVQIA-SPESIIVVNRIIFAFAKSR  117 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~----~~~~~~-~~~~~~~~~~l~~~~~~~~  117 (287)
                      ...+.++++..+.+-+..-  ..-.-.++..+..+.++.|.+++++..--    -..+.. -..-...|..+..++-+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556666666665554321  11112345556677788888877665422    111111 0112345556666666666


Q ss_pred             CHHHHHHHHHHHhcC-CCCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC-----CCCChhHHHHHHHHHHhcCc
Q 023133          118 QIEKALLIFDHIKGL-KCKP---DLITYNIVLDILGRVGRVNDMLNEFASMKEAG-----VVPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       118 ~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~  188 (287)
                      ++.+++.+-+.-... |..|   .-...-++..++...+.++++++.|+...+.-     .......+..+...|.+..+
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D  177 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKD  177 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHh
Confidence            667776665544332 2122   11233446677778888999999998875431     11234578888899999999


Q ss_pred             hHHHHHHHHHHhh----CCCcCCHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHh----CCCCc-chHhHHHHHHHHH
Q 023133          189 LDLCLIYFREMGE----SGIKPDLLTYT-----ALIDSFGRTGNIEESLRLFNDMKQ----QQIRP-SIYVYRSLIDNLK  254 (287)
Q Consensus       189 ~~~a~~~~~~~~~----~~~~~~~~~~~-----~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~  254 (287)
                      .++|.-+..+..+    .++..-..-|.     .|.-++...|.+-.|.+..++..+    .|-++ -......+.+.|.
T Consensus       178 ~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR  257 (518)
T KOG1941|consen  178 YEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYR  257 (518)
T ss_pred             hhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHH
Confidence            9998877766543    22221112232     344567788888888888777653    34332 2345667788899


Q ss_pred             hcCChHHHHHHHHHHhh
Q 023133          255 KMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       255 ~~g~~~~a~~~~~~~~~  271 (287)
                      ..|+.+.|+.-|+++..
T Consensus       258 ~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  258 SRGDLERAFRRYEQAMG  274 (518)
T ss_pred             hcccHhHHHHHHHHHHH
Confidence            99999999988887743

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.66  E-value=1  Score=37.13  Aligned_cols=128  Identities=16%  Similarity=0.183  Sum_probs=59.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCC-CCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHH-HHHHHH
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLK-CKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISY-NTLLNN  182 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~  182 (287)
                      +|...+..-.+..-++.|..+|-+..+.| +.+++..+++++..++ .|++.-|..+|+--...  -||...| ...+.-
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl~f  475 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYLLF  475 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHHHH
Confidence            44445555555555555555555555555 3445555555555443 33444555555543322  1222222 223333


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPD--LLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +...++-+.|..+|+..+++ +..+  ...|..+++--..-|+...+..+=++|.+
T Consensus       476 Li~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            44455555555555533322 1111  23455555555555555555544444443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.51  E-value=1.5  Score=38.08  Aligned_cols=149  Identities=12%  Similarity=0.118  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHHhhcCCCCchhH--HHHHHH-HhhcCChhHHHHHHHHHHH-------hcCCCCHHHHHHHHHHHhcc---
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAY--NCVLVA-SAETNDIDLSFQILKDLLV-------SSRTLSSDCYTNFARAFIMT---   81 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~--~~l~~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~---   81 (287)
                      ...|.+.++...+.|.......  .....+ +....+.+.|+..++....       .+   ......-+..+|.+.   
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            4567777777766665443111  112222 4456677888888777765       33   222344455555553   


Q ss_pred             -C-ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh-cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH--hcCCHHH
Q 023133           82 -D-DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK-SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG--RVGRVND  156 (287)
Q Consensus        82 -~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~  156 (287)
                       . +...|..++.+.-+.|. |+....-..+..... ..+...|.++|....+.|. ++..-+..++-...  -..+...
T Consensus       305 ~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~~~~  382 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERNLEL  382 (552)
T ss_pred             ccccHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCCHHH
Confidence             2 56667888877777773 444433322222222 2356778888887777663 22222222211111  2335677


Q ss_pred             HHHHHHHHHHcC
Q 023133          157 MLNEFASMKEAG  168 (287)
Q Consensus       157 a~~~~~~~~~~~  168 (287)
                      |..++.+..+.|
T Consensus       383 A~~~~k~aA~~g  394 (552)
T KOG1550|consen  383 AFAYYKKAAEKG  394 (552)
T ss_pred             HHHHHHHHHHcc
Confidence            777777777766

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.38  E-value=0.034  Score=27.91  Aligned_cols=24  Identities=17%  Similarity=0.296  Sum_probs=13.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 023133          246 YRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +..|...|.+.|++++|.++|++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555566666666666666653

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.28  E-value=0.038  Score=27.36  Aligned_cols=31  Identities=13%  Similarity=0.330  Sum_probs=19.5

Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 023133           92 EEVVQIASPESIIVVNRIIFAFAKSRQIEKAL  123 (287)
Q Consensus        92 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  123 (287)
                      ++.++.. |.+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            4444444 556667777777777777776664

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=95.23  E-value=0.71  Score=32.70  Aligned_cols=27  Identities=11%  Similarity=0.148  Sum_probs=12.5

Q ss_pred             HHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133           59 LLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus        59 ~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      +.+.+++|+...+..++..+.+.|++.
T Consensus        20 l~~~~i~~~~~L~~lli~lLi~~~~~~   46 (167)
T PF07035_consen   20 LNQHNIPVQHELYELLIDLLIRNGQFS   46 (167)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCHH
Confidence            333444444444444444444444433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.07  E-value=0.97  Score=33.39  Aligned_cols=161  Identities=9%  Similarity=0.025  Sum_probs=80.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCHhhHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC-KPDLITYNIVLD  146 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~  146 (287)
                      +..||-+.--+...|+++.|.+.|+...+.++..+-...|.-|.. .-.|++.-|.+=|...-+... .|-...|--+. 
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~-YY~gR~~LAq~d~~~fYQ~D~~DPfR~LWLYl~-  176 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIAL-YYGGRYKLAQDDLLAFYQDDPNDPFRSLWLYLN-  176 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceee-eecCchHhhHHHHHHHHhcCCCChHHHHHHHHH-
Confidence            455666666666777777777777777776644444444433332 335677777666555543320 11112222222 


Q ss_pred             HHHhcCCHHHHHHHHHH-HHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCC------cCCHHHHHHHHHHHH
Q 023133          147 ILGRVGRVNDMLNEFAS-MKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGI------KPDLLTYTALIDSFG  219 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~~l~~~~~  219 (287)
                        -+.-++.+|..-+.+ ....    |..-|...|-.+. .|+.. ...+++++....-      ..=..||--|...+.
T Consensus       177 --E~k~dP~~A~tnL~qR~~~~----d~e~WG~~iV~~y-LgkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l  248 (297)
T COG4785         177 --EQKLDPKQAKTNLKQRAEKS----DKEQWGWNIVEFY-LGKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYL  248 (297)
T ss_pred             --HhhCCHHHHHHHHHHHHHhc----cHhhhhHHHHHHH-Hhhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHh
Confidence              233355555543333 2221    3333433332222 12221 1223333322110      011356777888888


Q ss_pred             hcCCHHHHHHHHHHHHhCC
Q 023133          220 RTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..|+.++|..+|+-.+..+
T Consensus       249 ~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         249 SLGDLDEATALFKLAVANN  267 (297)
T ss_pred             ccccHHHHHHHHHHHHHHh
Confidence            8888888888888777653

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.04  E-value=0.079  Score=26.57  Aligned_cols=26  Identities=12%  Similarity=0.323  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|..|...|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46778888888888888888888854

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=94.87  E-value=0.063  Score=26.01  Aligned_cols=28  Identities=25%  Similarity=0.369  Sum_probs=20.3

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          248 SLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+..++.+.|++++|.+.|+++.+..|+
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            4556666777788888888777777775

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.79  E-value=2.5  Score=36.74  Aligned_cols=178  Identities=12%  Similarity=0.103  Sum_probs=101.7

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHH--HH-HHhcCCHHHHHHHHHHHhc-------CCCCCCHhhHHHHHHHHHhcC-
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRII--FA-FAKSRQIEKALLIFDHIKG-------LKCKPDLITYNIVLDILGRVG-  152 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~--~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~~-  152 (287)
                      ...+.++++...+.|. ......-.++  .+ +....+.+.|+..|+...+       .|   ......-+..+|.+.. 
T Consensus       228 ~~~a~~~~~~~a~~g~-~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~  303 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGH-SEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLG  303 (552)
T ss_pred             hhHHHHHHHHHHhhcc-hHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCC
Confidence            4678888888877763 2222222222  22 3456788999999888765       33   2334555666666543 


Q ss_pred             ----CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH--hcCCHH
Q 023133          153 ----RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK-IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG--RTGNIE  225 (287)
Q Consensus       153 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~  225 (287)
                          +.+.|..++....+.|.. +...+-..+..... ..+...|.++|....+.|. +....+..++....  -..+..
T Consensus       304 ~~~~d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~~~  381 (552)
T KOG1550|consen  304 VEKIDYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERNLE  381 (552)
T ss_pred             CccccHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCCHH
Confidence                567789999888887643 54433333332222 2456789999999888873 22222222222111  335788


Q ss_pred             HHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          226 ESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       226 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .|..++.+..+.| .|....-...+..+.. +.++.+.-.+..+
T Consensus       382 ~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~  423 (552)
T KOG1550|consen  382 LAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYL  423 (552)
T ss_pred             HHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHH
Confidence            8889998888877 3332222223333333 5555555444444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.67  E-value=2.8  Score=36.85  Aligned_cols=90  Identities=16%  Similarity=0.087  Sum_probs=70.6

Q ss_pred             CChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHH
Q 023133          171 PDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLI  250 (287)
Q Consensus       171 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  250 (287)
                      ...-+.+--+.-+...|+..+|.++-.+..    -||-..|..=+.+++..+++++-+++-+...      ++.-|.-.+
T Consensus       682 f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFV  751 (829)
T KOG2280|consen  682 FVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFV  751 (829)
T ss_pred             cccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHH
Confidence            334455555666777899999999888776    6888889888999999999998777665543      245566689


Q ss_pred             HHHHhcCChHHHHHHHHHHh
Q 023133          251 DNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~  270 (287)
                      .+|.+.|+.++|.+++-+..
T Consensus       752 e~c~~~~n~~EA~KYiprv~  771 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVG  771 (829)
T ss_pred             HHHHhcccHHHHhhhhhccC
Confidence            99999999999999998773

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.55  E-value=1  Score=31.09  Aligned_cols=52  Identities=21%  Similarity=0.128  Sum_probs=30.7

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS   62 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   62 (287)
                      ..++++++..+++.|.-..+..+..-..-...+...|+|++|.++|++..+.
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            3566677777777666555544433333333455667777777777776654

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=94.54  E-value=0.07  Score=27.55  Aligned_cols=25  Identities=20%  Similarity=0.430  Sum_probs=13.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +++.+...|...|++++|..+++++
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            4455555555555555555555555

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.43  E-value=0.098  Score=25.59  Aligned_cols=30  Identities=20%  Similarity=0.264  Sum_probs=18.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      +|..+...+...|++++|.+.|++..+..|
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~   32 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNP   32 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            345555566666666666666666655544

...

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.37  E-value=1.3  Score=31.53  Aligned_cols=23  Identities=17%  Similarity=0.189  Sum_probs=10.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .|.-+-.+.|++..|.+.|..+.
T Consensus       172 ALglAa~kagd~a~A~~~F~qia  194 (221)
T COG4649         172 ALGLAAYKAGDFAKAKSWFVQIA  194 (221)
T ss_pred             HHhHHHHhccchHHHHHHHHHHH
Confidence            33333444445555554444444

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.30  E-value=1.7  Score=34.12  Aligned_cols=103  Identities=16%  Similarity=0.216  Sum_probs=76.2

Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHH
Q 023133          133 KCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG---VVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLL  209 (287)
Q Consensus       133 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  209 (287)
                      |.+....+...++..-....+++.+..++-+++...   ..|+...+ .+++.+ -.-++++++.++..=++-|+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irll-lky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHH-HccChHHHHHHHhCcchhccccchh
Confidence            445566666777777777888999998888776531   22222222 233333 3456778998888888999999999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +++.+++.+.+.+++.+|..+.-.|..+
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999998888754

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.19  E-value=2  Score=33.00  Aligned_cols=250  Identities=13%  Similarity=0.167  Sum_probs=145.7

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHH---hcC--CCCHHHHHHHHHHHhcc
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLV---SSR--TLSSDCYTNFARAFIMT   81 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~--~~~~~~~~~l~~~~~~~   81 (287)
                      +..++++|+.-|.+..+......    .+...++....+.+++++.+..|.+++.   +.+  ..+..+.+.++.-.+..
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            34578999999999876543332    4667788999999999999999998853   222  23455677788777777


Q ss_pred             CChHHHHHHHHHHHhcC-CCCcHH----HHHHHHHHHHhcCCHHHHHHHHHHHhcCCC----CCC-------HhhHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIA-SPESII----VVNRIIFAFAKSRQIEKALLIFDHIKGLKC----KPD-------LITYNIVL  145 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~-~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~-------~~~~~~l~  145 (287)
                      .+.+....+++.-++.- -..+..    +-..|...|...+++.+..++++++.+..-    ..|       ...|..=|
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            77776666665433210 001111    223567778888999999999888854311    111       24567777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHH-----HHhcCchHHHHH-HHHHHh---hCCCcCCHHH---HH
Q 023133          146 DILGRVGRVNDMLNEFASMKEA-GVVPDFISYNTLLNN-----LRKIRRLDLCLI-YFREMG---ESGIKPDLLT---YT  212 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~-----~~~~~~~~~a~~-~~~~~~---~~~~~~~~~~---~~  212 (287)
                      ..|....+-.....++++.... .--|.+.... +|+-     ..+.|.+++|.. +|+...   +.| .|...+   |.
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsG-spRRttCLKYL  276 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESG-SPRRTTCLKYL  276 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccC-CcchhHHHHHH
Confidence            8888877777777777775432 2234444433 3333     345677777653 344333   445 444433   44


Q ss_pred             HHHHHHHhcCCHHHHHHHHH--HHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHH
Q 023133          213 ALIDSFGRTGNIEESLRLFN--DMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEE  268 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~--~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (287)
                      .|...+.++|--     =|+  +.....-.|.+.....++.+|-. ++..+-.++++.
T Consensus       277 VLANMLmkS~iN-----PFDsQEAKPyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~~  328 (440)
T KOG1464|consen  277 VLANMLMKSGIN-----PFDSQEAKPYKNDPEILAMTNLVAAYQN-NDIIEFERILKS  328 (440)
T ss_pred             HHHHHHHHcCCC-----CCcccccCCCCCCHHHHHHHHHHHHHhc-ccHHHHHHHHHh
Confidence            555555554410     011  11111224556667777777743 444444444433

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.18  E-value=1.3  Score=31.00  Aligned_cols=18  Identities=11%  Similarity=0.217  Sum_probs=8.1

Q ss_pred             HHhcCCHHHHHHHHHHHh
Q 023133          113 FAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~  130 (287)
                      +...|+|.+|..+|+++.
T Consensus        54 ~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELE   71 (160)
T ss_pred             HHHhCCHHHHHHHHHHHh
Confidence            334444444444444443

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.78  E-value=3  Score=33.68  Aligned_cols=65  Identities=9%  Similarity=-0.007  Sum_probs=42.8

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---ChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          137 DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVP---DFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      ...+|..+...+.+.|+++.|...+..+...+..+   +......-....-..|+..+|...++...+
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44467777777888888888888887776643211   223344445556667777888887777766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.77  E-value=5.2  Score=36.50  Aligned_cols=114  Identities=14%  Similarity=0.200  Sum_probs=56.1

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcC----CCCchhHHHHHHHHhhcCCh--hHHHHHHHHHHHhcCCCCHHHHHH--
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKN----IFLPNAYNCVLVASAETNDI--DLSFQILKDLLVSSRTLSSDCYTN--   73 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~--   73 (287)
                      |..|+..|...|+.++|+++|.+.....    ...+..+..++....+.+..  +..++.-....+....-....+..  
T Consensus       507 y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~~  586 (877)
T KOG2063|consen  507 YRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSED  586 (877)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeeccC
Confidence            5667777777777777777777766533    11113444455555444443  444444333332211100001111  


Q ss_pred             ----------HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           74 ----------FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        74 ----------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                                -+-.+......+.+..+++.+....-.++....+.++..|..
T Consensus       587 ~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  587 KQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             hhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHHH
Confidence                      112234445555566666666555444555555666655543

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=93.65  E-value=3.6  Score=34.13  Aligned_cols=79  Identities=19%  Similarity=0.140  Sum_probs=55.7

Q ss_pred             hHHHHHHHHHHhhCCCcCCH----HHHHHHHHH--HHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHH
Q 023133          189 LDLCLIYFREMGESGIKPDL----LTYTALIDS--FGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLA  262 (287)
Q Consensus       189 ~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  262 (287)
                      +..-..+-+-+.+.|++|-.    ..-|.|.++  +...|++.++.-.-..+.+  +.|++.+|..+.-++....++++|
T Consensus       437 ~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA  514 (549)
T PF07079_consen  437 IPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEA  514 (549)
T ss_pred             HHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHH
Confidence            33444444444556666543    334445443  4567888888766666665  689999999999999999999999


Q ss_pred             HHHHHHH
Q 023133          263 MTIFEEM  269 (287)
Q Consensus       263 ~~~~~~~  269 (287)
                      ..++..+
T Consensus       515 ~~~l~~L  521 (549)
T PF07079_consen  515 WEYLQKL  521 (549)
T ss_pred             HHHHHhC
Confidence            9999887

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>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=93.50  E-value=1.5  Score=31.99  Aligned_cols=79  Identities=13%  Similarity=0.077  Sum_probs=51.0

Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCcchHhHHHHHHHHHhcCCh
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ---QIRPSIYVYRSLIDNLKKMGKV  259 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~li~~~~~~g~~  259 (287)
                      +.+.|+ +.|.+.|-.+...+.--++.....|...|. ..+.+++..++.+..+.   +-.+|+..+.+|+..+.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            334444 457777777766664445555555555444 56777788877777643   3356777888888888888887


Q ss_pred             HHHH
Q 023133          260 DLAM  263 (287)
Q Consensus       260 ~~a~  263 (287)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            7764

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.33  E-value=3.2  Score=35.67  Aligned_cols=97  Identities=13%  Similarity=0.029  Sum_probs=44.4

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLN  159 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  159 (287)
                      +.|+++.|.++..+.      .+..-|..|.++..+.+++..|.+.|.+....         ..|+-.+...|+-+....
T Consensus       649 ~lgrl~iA~~la~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~---------~~LlLl~t~~g~~~~l~~  713 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARDL---------GSLLLLYTSSGNAEGLAV  713 (794)
T ss_pred             hcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcch---------hhhhhhhhhcCChhHHHH
Confidence            345555554443332      23344555555555555555555555554322         234444444555444444


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHH
Q 023133          160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFR  197 (287)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  197 (287)
                      +-....+.|..      |....+|...|+++++.+++.
T Consensus       714 la~~~~~~g~~------N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  714 LASLAKKQGKN------NLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHhhccc------chHHHHHHHcCCHHHHHHHHH
Confidence            44444444322      222223334455555555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.29  E-value=0.11  Score=25.69  Aligned_cols=30  Identities=17%  Similarity=0.080  Sum_probs=16.1

Q ss_pred             HHhhcCCCCchhHHHHHHHHhhcCChhHHH
Q 023133           24 SLRDKNIFLPNAYNCVLVASAETNDIDLSF   53 (287)
Q Consensus        24 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   53 (287)
                      +..+.++..+.+|+.+...+...|++++|+
T Consensus         4 kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    4 KAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            334444433356666666666666666553

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.03  E-value=0.29  Score=23.88  Aligned_cols=25  Identities=16%  Similarity=0.111  Sum_probs=10.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      |..+...|...|++++|+..|++..
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            3334444444444444444444433

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 ....

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.98  E-value=1.1  Score=28.57  Aligned_cols=60  Identities=10%  Similarity=0.156  Sum_probs=38.0

Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      +..+-+..+....+.|++....+.+.+|.+.+++..|.++|+-.+.+ ..+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            56666666667777888888888888888888888888888877743 2222336665554

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 ....

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.93  E-value=1.4  Score=27.87  Aligned_cols=46  Identities=13%  Similarity=-0.010  Sum_probs=28.1

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 023133           50 DLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVV   95 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   95 (287)
                      -++.+-++.+....+.|++......+++|-+.+++..|.++++-..
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            3444555555555566666666666666666666666666666554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.81  E-value=0.41  Score=24.50  Aligned_cols=29  Identities=21%  Similarity=0.402  Sum_probs=22.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          208 LLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       208 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ..+++.|...|...|++++|..++++..+
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35778888889999999999998888764

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=92.80  E-value=1  Score=28.42  Aligned_cols=63  Identities=10%  Similarity=0.103  Sum_probs=40.1

Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      +.-++.+-+..+....+.|++....+-+.+|.+.+|+..|.++|+-.+.+ ...+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            34456666666666667777777777777777777777777777766633 1123345555543

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.

>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=92.70  E-value=2  Score=31.42  Aligned_cols=73  Identities=11%  Similarity=0.068  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh---CCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          155 NDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE---SGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       155 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      +.|.+.|-.+...+.--++.....+...| ...+.+++..++.+..+   .+-.+|+..+..|++.+.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY-~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYY-TKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHH-HccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            55677777776665544444444444433 46677777777777654   223567777888888888888777663

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=92.67  E-value=5.6  Score=33.65  Aligned_cols=181  Identities=11%  Similarity=0.170  Sum_probs=115.0

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHH
Q 023133           65 TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIV  144 (287)
Q Consensus        65 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  144 (287)
                      +.|......++..+.....+.-++.+..++...|  .+...+..++.+|... ..+.-..+++++.+..+ .|++.-..|
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReL  138 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGREL  138 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHH
Confidence            4456667777888888888888888888888776  4556677788888777 66777788887777643 233333344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCC-----CChhHHHHHHHHHHhcCchHHHHHHHHHHhh-CCCcCCHHHHHHHHHHH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEAGVV-----PDFISYNTLLNNLRKIRRLDLCLIYFREMGE-SGIKPDLLTYTALIDSF  218 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~  218 (287)
                      ..-| ..++.+.+..+|......=++     .-...|..+...-  ..+.+....+...+.. .|...-...+.-+-.-|
T Consensus       139 a~~y-Ekik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         139 ADKY-EKIKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHH-HHhchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            4444 447778888888777654221     0123455554422  3556666666666653 34444455666666778


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHH
Q 023133          219 GRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       219 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      ....++++|++++....+.+ ..|...-..++.-+
T Consensus       216 s~~eN~~eai~Ilk~il~~d-~k~~~ar~~~i~~l  249 (711)
T COG1747         216 SENENWTEAIRILKHILEHD-EKDVWARKEIIENL  249 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhc-chhhhHHHHHHHHH
Confidence            88888888888888877763 34555555555544

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.62  E-value=3.9  Score=31.77  Aligned_cols=146  Identities=12%  Similarity=0.113  Sum_probs=98.1

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHH-hcCCCCHHHHHHHHHHHhc-cC-ChHHHHHHHHHHHhc-CCCCcHHHHHHHHH
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLV-SSRTLSSDCYTNFARAFIM-TD-DCTQLLIFIEEVVQI-ASPESIIVVNRIIF  111 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~  111 (287)
                      |..++.   ++....+|+.+|+.... ..+--|......+++.... .+ ....-.++.+-+... +-.++..+...++.
T Consensus       134 Y~~LVk---~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~  210 (292)
T PF13929_consen  134 YWDLVK---RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILE  210 (292)
T ss_pred             HHHHHH---hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHH
Confidence            666654   34446777777774322 2355577777777777665 22 333333444444433 33677788888999


Q ss_pred             HHHhcCCHHHHHHHHHHHhcC-CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH-----HHHcCCCCChhHHHHHHHHHH
Q 023133          112 AFAKSRQIEKALLIFDHIKGL-KCKPDLITYNIVLDILGRVGRVNDMLNEFAS-----MKEAGVVPDFISYNTLLNNLR  184 (287)
Q Consensus       112 ~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-----~~~~~~~~~~~~~~~l~~~~~  184 (287)
                      .++..++|.+-.++++..... +...|...|..+|......|+..-...+..+     ++..++..+...-..+-+.+.
T Consensus       211 ~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~  289 (292)
T PF13929_consen  211 ILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFK  289 (292)
T ss_pred             HHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHH
Confidence            999999999999999887654 5566888999999999999998887777766     244456666555555544443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.59  E-value=1.6  Score=32.35  Aligned_cols=75  Identities=12%  Similarity=0.120  Sum_probs=48.6

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh--cCCCCHHHHHHHHHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS--SRTLSSDCYTNFARA   77 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~   77 (287)
                      +..++.+.+.+++++++.....-.+..+.....-..+++.++-.|++++|..-++-.-..  ...+....|..++++
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            445677778888888888777766666544466777777888888888887666555432  122334455555544

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=92.45  E-value=5.8  Score=33.28  Aligned_cols=122  Identities=11%  Similarity=0.067  Sum_probs=79.7

Q ss_pred             HhccCChHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQIA-SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVND  156 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (287)
                      ....|+.-.|-+-+...++.. -.|+.....+  ..+...|+++.+.+.+...... +.....+..++++...+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHH
Confidence            344566665554444443332 2344443333  3466779999998888766542 13455677888888889999999


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          157 MLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       157 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      |..+-.-|....+. +........-..-..|-++++...|+++....
T Consensus       376 a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        376 ALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HHHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            99988888776665 55544444444556778889999888887543

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=92.42  E-value=2.9  Score=32.28  Aligned_cols=87  Identities=11%  Similarity=0.145  Sum_probs=40.4

Q ss_pred             HHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH-----
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG-----  149 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-----  149 (287)
                      |.+++..++|.++..+.-+-.+.--+....+...-|-.|.+.+++..+.++-..-.+.--.-+...|.++...|.     
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            455666666666655544433221111223333344446666666666655544433211122233444444333     


Q ss_pred             hcCCHHHHHHHH
Q 023133          150 RVGRVNDMLNEF  161 (287)
Q Consensus       150 ~~~~~~~a~~~~  161 (287)
                      =.|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence            346666666555

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

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.33  E-value=0.68  Score=36.62  Aligned_cols=88  Identities=9%  Similarity=0.029  Sum_probs=53.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          146 DILGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      .-|.+.|.+++|+..|......  .| |.+++..-..+|.+...+..|..=....+..+ ..-...|..-+.+-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhH
Confidence            4577778888888887776554  34 66777777777777777776666555554332 11223344444444445566


Q ss_pred             HHHHHHHHHHHh
Q 023133          225 EESLRLFNDMKQ  236 (287)
Q Consensus       225 ~~a~~~~~~~~~  236 (287)
                      .+|.+-++..++
T Consensus       182 ~EAKkD~E~vL~  193 (536)
T KOG4648|consen  182 MEAKKDCETVLA  193 (536)
T ss_pred             HHHHHhHHHHHh
Confidence            666666665554

>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=92.27  E-value=0.06  Score=37.18  Aligned_cols=84  Identities=13%  Similarity=0.184  Sum_probs=45.9

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++...       ..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~-------~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN-------NYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS-------SS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc-------ccCHHHHHHHHHhcch
Confidence            445555566666666666666655545556666677777776665566555555211       1222344555555566


Q ss_pred             HHHHHHHHHHH
Q 023133          154 VNDMLNEFASM  164 (287)
Q Consensus       154 ~~~a~~~~~~~  164 (287)
                      ++++.-++.++
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            65555555543

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.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.14  E-value=0.44  Score=23.09  Aligned_cols=21  Identities=19%  Similarity=0.246  Sum_probs=8.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHH
Q 023133          109 IIFAFAKSRQIEKALLIFDHI  129 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~  129 (287)
                      +...+...|++++|.+.|++.
T Consensus         7 lg~~~~~~~~~~~A~~~~~~a   27 (34)
T PF07719_consen    7 LGQAYYQLGNYEEAIEYFEKA   27 (34)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            333444444444444444433

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 ....

>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=92.14  E-value=0.054  Score=37.42  Aligned_cols=85  Identities=11%  Similarity=0.165  Sum_probs=56.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC
Q 023133          144 VLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN  223 (287)
Q Consensus       144 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  223 (287)
                      ++..+.+.+.++....+++.+...+...+....+.++..|++.+..++..++++....       .-...++..|.+.|.
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            5566667777788888888887666555677778888888888777777777662111       223356677777788


Q ss_pred             HHHHHHHHHHHH
Q 023133          224 IEESLRLFNDMK  235 (287)
Q Consensus       224 ~~~a~~~~~~~~  235 (287)
                      ++++..++.++-
T Consensus        86 ~~~a~~Ly~~~~   97 (143)
T PF00637_consen   86 YEEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHHCCT
T ss_pred             HHHHHHHHHHcc
Confidence            877777777654

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.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.04  E-value=3.7  Score=30.10  Aligned_cols=90  Identities=13%  Similarity=0.129  Sum_probs=51.9

Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCc----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPES----IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG  152 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (287)
                      -+...|++++|..-|..+++.-.+..    ...|..-..++.+.+.++.|+.--.+.++.+ +........-..+|.+..
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~e  182 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKME  182 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhhh
Confidence            34556777777777766666532111    2334444556667777777777666666654 112222333345666677


Q ss_pred             CHHHHHHHHHHHHHc
Q 023133          153 RVNDMLNEFASMKEA  167 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~  167 (287)
                      ++++|++-|..+.+.
T Consensus       183 k~eealeDyKki~E~  197 (271)
T KOG4234|consen  183 KYEEALEDYKKILES  197 (271)
T ss_pred             hHHHHHHHHHHHHHh
Confidence            777777777777665

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=92.00  E-value=0.54  Score=28.33  Aligned_cols=44  Identities=9%  Similarity=0.007  Sum_probs=19.4

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQ   54 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~   54 (287)
                      ..++.++|+..|....+.-..++   .++..++.+|+..|++.++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444445554444444433333   344444444444444444433

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.82  E-value=3  Score=30.54  Aligned_cols=91  Identities=13%  Similarity=0.142  Sum_probs=59.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC----hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc
Q 023133          146 DILGRVGRVNDMLNEFASMKEAGVVPD----FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT  221 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  221 (287)
                      .-+.++|++++|..-|....+.-....    ...|..-..++.+.+.++.|+.-....++.+ +........-..+|.+.
T Consensus       103 N~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~-pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELN-PTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcC-chhHHHHHHHHHHHHhh
Confidence            346678888888888888877522211    1334444566777888888888777777664 11222333345577788


Q ss_pred             CCHHHHHHHHHHHHhC
Q 023133          222 GNIEESLRLFNDMKQQ  237 (287)
Q Consensus       222 g~~~~a~~~~~~~~~~  237 (287)
                      ..+++|+.-|..+.+.
T Consensus       182 ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  182 EKYEEALEDYKKILES  197 (271)
T ss_pred             hhHHHHHHHHHHHHHh
Confidence            8888888888888775

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=91.80  E-value=3.9  Score=31.60  Aligned_cols=87  Identities=11%  Similarity=0.028  Sum_probs=38.6

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK----  115 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  115 (287)
                      |+++++.++|.+++...-+.-+..-+........-|-.|++.+.+..+.++-.......-..+..-|.+++..|..    
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            4455555555555544433332221222233333334455555555555555444433222233335544444433    


Q ss_pred             -cCCHHHHHHHH
Q 023133          116 -SRQIEKALLIF  126 (287)
Q Consensus       116 -~~~~~~a~~~~  126 (287)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             35555555554

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

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=91.71  E-value=4.4  Score=30.28  Aligned_cols=77  Identities=16%  Similarity=0.194  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHhcCC-------HHHHHHHHHHHHhCCCCc----ch-HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          210 TYTALIDSFGRTGN-------IEESLRLFNDMKQQQIRP----SI-YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       210 ~~~~l~~~~~~~g~-------~~~a~~~~~~~~~~~~~~----~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .+..+...|...|+       ...|.+.|.+..+..-.|    +. ...-.+.....+.|+.++|.++|.++........
T Consensus       120 l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~s~  199 (214)
T PF09986_consen  120 LCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKASK  199 (214)
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCCCC
Confidence            34455566666666       344555666555432221    22 2333445567789999999999999988755444


Q ss_pred             ChhhHhhhcC
Q 023133          278 GPKDFKRKAR  287 (287)
Q Consensus       278 ~~~~~~~~~r  287 (287)
                       +....++||
T Consensus       200 -~~~l~~~AR  208 (214)
T PF09986_consen  200 -EPKLKDMAR  208 (214)
T ss_pred             -cHHHHHHHH
Confidence             555555554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.67  E-value=4  Score=29.72  Aligned_cols=95  Identities=14%  Similarity=0.057  Sum_probs=57.6

Q ss_pred             HHHHHhcCchHHHHHHHHHHhhCCCcCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcC
Q 023133          180 LNNLRKIRRLDLCLIYFREMGESGIKPD--LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMG  257 (287)
Q Consensus       180 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  257 (287)
                      ...+...+++++|..-++.........+  ...--.|.......|.+|+|++.++.....++  .......-.+.+...|
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg  173 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcC
Confidence            3456677788888877776664311111  11222345566777888888888777665432  2223344456677788


Q ss_pred             ChHHHHHHHHHHhhcCCCC
Q 023133          258 KVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       258 ~~~~a~~~~~~~~~~~~~~  276 (287)
                      +-++|..-|++...+.++.
T Consensus       174 ~k~~Ar~ay~kAl~~~~s~  192 (207)
T COG2976         174 DKQEARAAYEKALESDASP  192 (207)
T ss_pred             chHHHHHHHHHHHHccCCh
Confidence            8888888888887776433

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.67  E-value=6.1  Score=31.89  Aligned_cols=66  Identities=17%  Similarity=0.129  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc---chHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          206 PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP---SIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       206 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ....++..++..+.+.|.++.|...+.++...+..+   +......-+..+-..|+.++|+..++....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344577888888888999999988888887643211   334445556667778888888888888766

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=91.50  E-value=3.1  Score=28.22  Aligned_cols=78  Identities=9%  Similarity=0.122  Sum_probs=47.8

Q ss_pred             cCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcc--hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          205 KPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      .++..+--.+..++.++.+   ..+.+.+++.+.+.. .|+  ......|.-++.+.++++++.++.+...+..|+++..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~-~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa  107 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSA-HPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQA  107 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhc-CcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHH
Confidence            4455555556666665543   555667777777522 222  2333445556778888888888888888777777665


Q ss_pred             hhHh
Q 023133          280 KDFK  283 (287)
Q Consensus       280 ~~~~  283 (287)
                      ....
T Consensus       108 ~~Lk  111 (149)
T KOG3364|consen  108 LELK  111 (149)
T ss_pred             HHHH
Confidence            4443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.39  E-value=8.1  Score=32.76  Aligned_cols=175  Identities=9%  Similarity=0.085  Sum_probs=93.1

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      ..-.++..+..+-.+.-+..+..+|+.-|  -+...+..++.+|... ..+.-..+|+++.+..+ .|+..-.-|...|-
T Consensus        68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa~~yE  143 (711)
T COG1747          68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELADKYE  143 (711)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHHHHHH
Confidence            34445555666666666666666666543  3455666666766666 44556667777666653 33444444444444


Q ss_pred             hcCCHHHHHHHHHHHhcCCCC-----CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcCc
Q 023133          115 KSRQIEKALLIFDHIKGLKCK-----PDLITYNIVLDILGRVGRVNDMLNEFASMKEA-GVVPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~  188 (287)
                      + ++.+.+...|.++...-++     .-...|.-+...-  ..+.+..+.+...+... |...-...+.-+-.-|....+
T Consensus       144 k-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN  220 (711)
T COG1747         144 K-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENEN  220 (711)
T ss_pred             H-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccC
Confidence            4 6666666666665433211     0112344443321  23455555555555332 333334445555566666777


Q ss_pred             hHHHHHHHHHHhhCCCcCCHHHHHHHHHH
Q 023133          189 LDLCLIYFREMGESGIKPDLLTYTALIDS  217 (287)
Q Consensus       189 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  217 (287)
                      +++|++++..+.+.+ ..|...-..++.-
T Consensus       221 ~~eai~Ilk~il~~d-~k~~~ar~~~i~~  248 (711)
T COG1747         221 WTEAIRILKHILEHD-EKDVWARKEIIEN  248 (711)
T ss_pred             HHHHHHHHHHHhhhc-chhhhHHHHHHHH
Confidence            777777777766654 3344444444443

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=91.14  E-value=0.37  Score=26.70  Aligned_cols=31  Identities=16%  Similarity=0.078  Sum_probs=16.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          249 LIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      +.-++.+.|++++|.++.+.+.+..|++...
T Consensus         7 lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa   37 (53)
T PF14853_consen    7 LAIGHYKLGEYEKARRYCDALLEIEPDNRQA   37 (53)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHHHTTS-HHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhhCCCcHHH
Confidence            3344555666666666666666655555443

>smart00028 TPR Tetratricopeptide repeats

Probab=91.11  E-value=0.61  Score=21.55  Aligned_cols=29  Identities=21%  Similarity=0.202  Sum_probs=16.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          246 YRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      +..+...+...|++++|...+++..+..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34445555555666666666665554443

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PRK09687 putative lyase; Provisional

Probab=91.06  E-value=6.3  Score=30.89  Aligned_cols=222  Identities=9%  Similarity=-0.039  Sum_probs=136.5

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh----HHHHHHHHHHHhcCCCCcHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC----TQLLIFIEEVVQIASPESIIVVNRII  110 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~  110 (287)
                      .....+.++...|. +.+...+..+..   .++...-...+.++...|+.    .++...+..+...  .++..+-...+
T Consensus        39 vR~~A~~aL~~~~~-~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~  112 (280)
T PRK09687         39 KRISSIRVLQLRGG-QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAI  112 (280)
T ss_pred             HHHHHHHHHHhcCc-chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHH
Confidence            56666667777765 344444445543   33555555566777777763    4567777766443  35566666666


Q ss_pred             HHHHhcCC-----HHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 023133          111 FAFAKSRQ-----IEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK  185 (287)
Q Consensus       111 ~~~~~~~~-----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  185 (287)
                      .++...+.     ...+...+.....   .++..+-...+.++++.++ +++...+-.+.+.   +|...-...+.++.+
T Consensus       113 ~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~aLg~  185 (280)
T PRK09687        113 NATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFALNS  185 (280)
T ss_pred             HHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHHHhc
Confidence            66655442     1334444444433   3455565667777777776 4566766666653   344555555666655


Q ss_pred             cC-chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHH
Q 023133          186 IR-RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMT  264 (287)
Q Consensus       186 ~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  264 (287)
                      .+ +...+...+..+..   .++...-...+.++.+.|+ ..|...+-+..+.+   +  .....+.++...|.. +|..
T Consensus       186 ~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p  255 (280)
T PRK09687        186 NKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLP  255 (280)
T ss_pred             CCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHH
Confidence            43 24466666666664   3566677778888888888 45666666666543   2  234677888888885 7999


Q ss_pred             HHHHHhhcCCCCCCh
Q 023133          265 IFEEMNSSLSDLAGP  279 (287)
Q Consensus       265 ~~~~~~~~~~~~~~~  279 (287)
                      .+.++.+.+|+....
T Consensus       256 ~L~~l~~~~~d~~v~  270 (280)
T PRK09687        256 VLDTLLYKFDDNEII  270 (280)
T ss_pred             HHHHHHhhCCChhHH
Confidence            999998877755433

>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]

Probab=90.54  E-value=6.9  Score=30.49  Aligned_cols=25  Identities=0%  Similarity=-0.035  Sum_probs=12.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          139 ITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ..+..+..-|++.++.+.+.++..+
T Consensus       116 ea~~n~aeyY~qi~D~~ng~~~~~~  140 (412)
T COG5187         116 EADRNIAEYYCQIMDIQNGFEWMRR  140 (412)
T ss_pred             HHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            3445555555555555555554444

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=90.50  E-value=7  Score=30.47  Aligned_cols=139  Identities=7%  Similarity=0.022  Sum_probs=93.9

Q ss_pred             CChHHHHHHHHHHHh-cCCCCcHHHHHHHHHHHHhcC--CHHHHHHHHHHHh-cCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           82 DDCTQLLIFIEEVVQ-IASPESIIVVNRIIFAFAKSR--QIEKALLIFDHIK-GLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      ....+|+++|+.... ..+-.|..+...+++......  ....-.++.+-+. ..+-.++..+...++..++..++|.+-
T Consensus       142 ~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  142 KIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            344566677663322 234456667777777666522  2222233333333 223467888889999999999999999


Q ss_pred             HHHHHHHHHc-CCCCChhHHHHHHHHHHhcCchHHHHHHHHHH-----hhCCCcCCHHHHHHHHHHHHh
Q 023133          158 LNEFASMKEA-GVVPDFISYNTLLNNLRKIRRLDLCLIYFREM-----GESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       158 ~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~-----~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      .+++...... +..-|...|..+|......|+..-...+..+-     ...++..+...-..|-..+.+
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~LF~~  290 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSELFKK  290 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHHHHHh
Confidence            9999887655 56668899999999999999998888887652     355666666665555554443

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=90.27  E-value=0.58  Score=21.33  Aligned_cols=20  Identities=25%  Similarity=0.282  Sum_probs=10.7

Q ss_pred             HHHHHHHhcCChHHHHHHHH
Q 023133          248 SLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~  267 (287)
                      .+..++...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34455555555555555543

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.22  E-value=1.2  Score=21.45  Aligned_cols=27  Identities=26%  Similarity=0.458  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +|..+...|...|++++|.+.|++..+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            566777788888888888888888765

...

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=90.02  E-value=1.5  Score=25.27  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       224 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ++...++++.+...  +-|..-.-.+|.++...|++++|.++++++.+
T Consensus         6 ~~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    6 LEELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34444555555432  34555666667777777777777777776643

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.00  E-value=6.8  Score=29.55  Aligned_cols=16  Identities=6%  Similarity=0.162  Sum_probs=9.2

Q ss_pred             hhcCChhHHHHHHHHH
Q 023133           44 AETNDIDLSFQILKDL   59 (287)
Q Consensus        44 ~~~~~~~~a~~~~~~~   59 (287)
                      .-.+.+++|-++|.+.
T Consensus        25 gg~~k~eeAadl~~~A   40 (288)
T KOG1586|consen   25 GGSNKYEEAAELYERA   40 (288)
T ss_pred             CCCcchHHHHHHHHHH
Confidence            3344666666666554

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.90  E-value=4.9  Score=27.83  Aligned_cols=17  Identities=6%  Similarity=0.126  Sum_probs=7.5

Q ss_pred             hcCCHHHHHHHHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKE  166 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~  166 (287)
                      ..|+|.+|..+|+++.+
T Consensus        56 ~rg~w~eA~rvlr~l~~   72 (153)
T TIGR02561        56 ARGNYDEAARILRELLS   72 (153)
T ss_pred             HcCCHHHHHHHHHhhhc
Confidence            34444444444444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=89.79  E-value=3.4  Score=30.69  Aligned_cols=56  Identities=7%  Similarity=0.084  Sum_probs=27.4

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 023133           38 CVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEV   94 (287)
Q Consensus        38 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   94 (287)
                      .-+..+.+.+..++++...++-.+.+ +-+..+-..++..++-.|++++|..-++-.
T Consensus         6 ~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~   61 (273)
T COG4455           6 DTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLA   61 (273)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHH
Confidence            33444455555555555555544432 223334444555555555555555544443

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.73  E-value=0.61  Score=22.32  Aligned_cols=20  Identities=15%  Similarity=0.257  Sum_probs=8.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHh
Q 023133          111 FAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~  130 (287)
                      .++.+.|++++|.+.|+++.
T Consensus         8 ~~~~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen    8 RCYYKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHH
Confidence            33444444444444444443

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=89.70  E-value=14  Score=32.74  Aligned_cols=183  Identities=15%  Similarity=0.179  Sum_probs=106.8

Q ss_pred             hHHHHHHHHHhhcCCCCc----hhHHHHHHHHh-hcCChhHHHHHHHHHHHhcCCCCHH-----HHHHHHHHHhccCChH
Q 023133           16 SAAVRLLQSLRDKNIFLP----NAYNCVLVASA-ETNDIDLSFQILKDLLVSSRTLSSD-----CYTNFARAFIMTDDCT   85 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~~~~~~   85 (287)
                      ..|++.++.+.+....+|    .++..+...+. ...+++.|...+++.....-.++-.     +-..++..+.+.+...
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            345666666664433343    45666677665 6788999999999876543333322     1223455555555555


Q ss_pred             HHHHHHHHHHhcC----CCCcHHHHHHH-HHHHHhcCCHHHHHHHHHHHhcCC---CCCCHhhHHHHHHHHH--hcCCHH
Q 023133           86 QLLIFIEEVVQIA----SPESIIVVNRI-IFAFAKSRQIEKALLIFDHIKGLK---CKPDLITYNIVLDILG--RVGRVN  155 (287)
Q Consensus        86 ~a~~~~~~~~~~~----~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~--~~~~~~  155 (287)
                       |...+++.++.-    ..+-...+..+ +..+...++...|.+.++.+....   ..|....+-.++.+..  +.+.++
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             888888876542    11223344444 333334479999999998875432   1344444445555443  456677


Q ss_pred             HHHHHHHHHHHcCC---------CCChhHHHHHHHHHH--hcCchHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGV---------VPDFISYNTLLNNLR--KIRRLDLCLIYFREM  199 (287)
Q Consensus       156 ~a~~~~~~~~~~~~---------~~~~~~~~~l~~~~~--~~~~~~~a~~~~~~~  199 (287)
                      ++.+.++.+.....         .|...+|..+++.++  ..|+++.+...++++
T Consensus       197 d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  197 DVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             hHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            78888777643221         234566777766544  466666766665554

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 [].

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.57  E-value=1.4  Score=23.29  Aligned_cols=23  Identities=17%  Similarity=0.420  Sum_probs=11.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 023133          214 LIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       214 l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      |..+|...|+.+.|.++++++..
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~   27 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIE   27 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHH
Confidence            34445555555555555555543

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.42  E-value=4  Score=26.13  Aligned_cols=46  Identities=11%  Similarity=0.241  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      +..+-++.+....+.|++....+.+++|.+.+++..|.++++-+..
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            4555555555666667777777777777777777777777776653

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 ....

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=89.39  E-value=2.9  Score=30.57  Aligned_cols=35  Identities=20%  Similarity=0.237  Sum_probs=24.8

Q ss_pred             CcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          240 RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       240 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      .|+..+|..++.++...|+.++|.++..++....|
T Consensus       141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~lyP  175 (193)
T PF11846_consen  141 RPDPNVYQRYALALALLGDPEEARQWLARARRLYP  175 (193)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            56777777777777777777777777777766666

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.16  E-value=15  Score=32.49  Aligned_cols=44  Identities=16%  Similarity=0.181  Sum_probs=31.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN   47 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   47 (287)
                      ++|-.|.|+|++++|.++..............+...+..+....
T Consensus       116 a~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  116 ALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             HHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTTT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhCC
Confidence            46788999999999999996665554444457777788776653

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=88.97  E-value=1.1  Score=23.64  Aligned_cols=19  Identities=21%  Similarity=0.419  Sum_probs=7.4

Q ss_pred             HHhhcCChhHHHHHHHHHH
Q 023133           42 ASAETNDIDLSFQILKDLL   60 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~   60 (287)
                      +|...|+.+.|.+++++..
T Consensus         8 ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         8 AYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHcCChHHHHHHHHHHH
Confidence            3333333333333333333

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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=88.52  E-value=8.5  Score=28.72  Aligned_cols=184  Identities=15%  Similarity=0.070  Sum_probs=105.9

Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  157 (287)
                      |-..|-+..|.--|.+..... |.-+.+||-+.-.+...|+++.|.+.|+...+....-+-...|.-| ++.--|++.-|
T Consensus        75 YDSlGL~~LAR~DftQaLai~-P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LA  152 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLA  152 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcC-CCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhh
Confidence            334455555555566665554 4456789999888999999999999999998764222222222222 33457889888


Q ss_pred             HHHHHHHHHcCC-CCChhHHHHHHHHHHhcCchHHHHHH-HHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          158 LNEFASMKEAGV-VPDFISYNTLLNNLRKIRRLDLCLIY-FREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       158 ~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .+-|...-+.+. .|-...|-.+..   ..-++.+|..- .++..+    .|..-|..-+-.|.- |++. ...+++++.
T Consensus       153 q~d~~~fYQ~D~~DPfR~LWLYl~E---~k~dP~~A~tnL~qR~~~----~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~  223 (297)
T COG4785         153 QDDLLAFYQDDPNDPFRSLWLYLNE---QKLDPKQAKTNLKQRAEK----SDKEQWGWNIVEFYL-GKIS-EETLMERLK  223 (297)
T ss_pred             HHHHHHHHhcCCCChHHHHHHHHHH---hhCCHHHHHHHHHHHHHh----ccHhhhhHHHHHHHH-hhcc-HHHHHHHHH
Confidence            887777655432 333344444443   23355555543 344432    344444443333321 2211 122333333


Q ss_pred             hCCC------CcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          236 QQQI------RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       236 ~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      ...-      ..-..||-.+..-+...|+.++|..+|+-....
T Consensus       224 a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         224 ADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             hhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            2110      012356777888889999999999999876543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=88.39  E-value=5.4  Score=31.89  Aligned_cols=90  Identities=11%  Similarity=-0.005  Sum_probs=52.5

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQ   86 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   86 (287)
                      .-|.+.|.+++|+..|.......+..+..+..-..+|.+...+..|..-....+..+ ..-...|..-+.+-...|...+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            356777888888888877776666555666677777777777776665555544321 0011223333333333455566


Q ss_pred             HHHHHHHHHhc
Q 023133           87 LLIFIEEVVQI   97 (287)
Q Consensus        87 a~~~~~~~~~~   97 (287)
                      |.+-++..++.
T Consensus       184 AKkD~E~vL~L  194 (536)
T KOG4648|consen  184 AKKDCETVLAL  194 (536)
T ss_pred             HHHhHHHHHhh
Confidence            66666555554

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=87.93  E-value=21  Score=32.53  Aligned_cols=87  Identities=6%  Similarity=-0.005  Sum_probs=42.6

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcH-------HHHHHHH-HHHHhcCCHHHHHHHHHHHhcC----CCCCCHhhHHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESI-------IVVNRII-FAFAKSRQIEKALLIFDHIKGL----KCKPDLITYNIVLDI  147 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~  147 (287)
                      ...++.+|..++.++...-..|+.       ..++.+- ......|++++|.++.+.....    -..+....+..+..+
T Consensus       427 s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a  506 (894)
T COG2909         427 SQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEA  506 (894)
T ss_pred             HccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHH
Confidence            445666666666665443222211       1222221 1123356666666665554332    112334445555556


Q ss_pred             HHhcCCHHHHHHHHHHHHH
Q 023133          148 LGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~  166 (287)
                      ..-.|++++|..+..+..+
T Consensus       507 ~~~~G~~~~Al~~~~~a~~  525 (894)
T COG2909         507 AHIRGELTQALALMQQAEQ  525 (894)
T ss_pred             HHHhchHHHHHHHHHHHHH
Confidence            6666777777666655443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=87.85  E-value=11  Score=29.41  Aligned_cols=40  Identities=15%  Similarity=0.101  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIF  126 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  126 (287)
                      .+|+++|.-+.+..- . ..+-+.++.++....+..+|...+
T Consensus       150 ~KA~ELFayLv~hkg-k-~v~~~~~ie~lwpe~D~kka~s~l  189 (361)
T COG3947         150 RKALELFAYLVEHKG-K-EVTSWEAIEALWPEKDEKKASSLL  189 (361)
T ss_pred             hHHHHHHHHHHHhcC-C-cccHhHHHHHHccccchhhHHHHH
Confidence            568888888776531 1 223344666777777776666554

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.81  E-value=2.4  Score=36.35  Aligned_cols=97  Identities=8%  Similarity=0.039  Sum_probs=71.1

Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHH
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLA  262 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  262 (287)
                      +...|+...|...+.........-..+..-.|.+...+.|....|..++.+..... ...+.++..+.+++....+++.|
T Consensus       617 wr~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a  695 (886)
T KOG4507|consen  617 WRAVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGA  695 (886)
T ss_pred             eeecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHH
Confidence            34467888888888776543211122334456666777788888988888877653 44567788888999999999999


Q ss_pred             HHHHHHHhhcCCCCCChh
Q 023133          263 MTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~  280 (287)
                      ++.|+++.+..|+.+..+
T Consensus       696 ~~~~~~a~~~~~~~~~~~  713 (886)
T KOG4507|consen  696 LEAFRQALKLTTKCPECE  713 (886)
T ss_pred             HHHHHHHHhcCCCChhhH
Confidence            999999999988887643

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.73  E-value=11  Score=29.12  Aligned_cols=26  Identities=15%  Similarity=0.224  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      .|..=|+.|....+-.....++++..
T Consensus       193 iYAlEIQmYT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  193 IYALEIQMYTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             hHhhHhhhhhhhcccHHHHHHHHHHH
Confidence            34444555555555555555555443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.65  E-value=12  Score=32.49  Aligned_cols=100  Identities=14%  Similarity=0.099  Sum_probs=60.6

Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      ..+.|+++.|.++..+.      .+..-|..|..+..+.+++..|.+.|....+         |..|+-.+...|+.+..
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 ALKLGRLDIAFDLAVEA------NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhhcCcHHHHHHHHHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHH
Confidence            34556666666665543      2555677777777777777777777766543         34555556666766655


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFND  233 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  233 (287)
                      ..+-....+.| +.|     .-.-+|...|+++++.+++..
T Consensus       712 ~~la~~~~~~g-~~N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AVLASLAKKQG-KNN-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HHHHHHHHhhc-ccc-----hHHHHHHHcCCHHHHHHHHHh
Confidence            55555555554 222     233345567777777776654

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.55  E-value=20  Score=31.84  Aligned_cols=224  Identities=11%  Similarity=0.133  Sum_probs=95.8

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHh---
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS-PESIIVVNRIIFAFAK---  115 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~---  115 (287)
                      ...+.-.|.++.|++.+-+  ..+...+...+...+.-+.-.+-.....   ..+..... .+...-+..||..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            3444567888998888766  2223344444444443333222111111   22222110 1112446677777776   


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHhhH-HHHHHHHHhcCCHHHHH-----------HHHHH-HHHcCCCC-ChhHH---HH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLITY-NIVLDILGRVGRVNDML-----------NEFAS-MKEAGVVP-DFISY---NT  178 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~-----------~~~~~-~~~~~~~~-~~~~~---~~  178 (287)
                      ..+..+|.++|--+....-+.....+ .++-......++++.-+           .++++ ..-.+... +....   ..
T Consensus       340 ~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li~~~~~~~~~~~i~~~  419 (613)
T PF04097_consen  340 ITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLIKFDDDEDFLREIIEQ  419 (613)
T ss_dssp             TT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGGT-SSSSHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeeccccccCCCCcHHHHHHHHHH
Confidence            45788888888877654321122222 22222233333332211           11111 00001211 22222   22


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHH-HHHhcCC-----------HHHHHHHHHHHHhCC-----C-C
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALID-SFGRTGN-----------IEESLRLFNDMKQQQ-----I-R  240 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~-----------~~~a~~~~~~~~~~~-----~-~  240 (287)
                      ...-+...|++++|..+|.-..+..  .-....|.++. +......           ...|..+.+.....+     + .
T Consensus       420 ~A~~~e~~g~~~dAi~Ly~La~~~d--~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~y~~~~~~~~~~~~  497 (613)
T PF04097_consen  420 AAREAEERGRFEDAILLYHLAEEYD--KVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILERYKSNPHISSKVSR  497 (613)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHTT-HH--HHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHHHTTSHHHHTTS-H
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhhHH--HHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHHHHhCcchHhhccH
Confidence            2334666788888888887765321  11123333332 2332222           444555555554331     1 1


Q ss_pred             cchHhHHHHHH-----HHHhcCChHHHHHHHHHHh
Q 023133          241 PSIYVYRSLID-----NLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       241 ~~~~~~~~li~-----~~~~~g~~~~a~~~~~~~~  270 (287)
                      .+..|+..|++     .+...|++++|++.++++.
T Consensus       498 ~~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L~  532 (613)
T PF04097_consen  498 KNRETFQLLLDLAEFFDLYHAGQYEQALDIIEKLD  532 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence            23455555554     3468899999999998884

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=87.46  E-value=5  Score=34.53  Aligned_cols=87  Identities=14%  Similarity=0.088  Sum_probs=40.1

Q ss_pred             hcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL  124 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  124 (287)
                      ..|+...|...+.........-.......|.....+.+....|-.++.+.+... ...+.++..+.++|....+++.|++
T Consensus       619 ~~gn~~~a~~cl~~a~~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~  697 (886)
T KOG4507|consen  619 AVGNSTFAIACLQRALNLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALE  697 (886)
T ss_pred             ecCCcHHHHHHHHHHhccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHH
Confidence            345555555555444332111111122334444444454555555555444443 2333444455555555556666666


Q ss_pred             HHHHHhcC
Q 023133          125 IFDHIKGL  132 (287)
Q Consensus       125 ~~~~~~~~  132 (287)
                      .|++..+.
T Consensus       698 ~~~~a~~~  705 (886)
T KOG4507|consen  698 AFRQALKL  705 (886)
T ss_pred             HHHHHHhc
Confidence            55555443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.16  E-value=27  Score=33.02  Aligned_cols=87  Identities=18%  Similarity=0.259  Sum_probs=47.7

Q ss_pred             CChhHHHHHH----HHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH--
Q 023133          171 PDFISYNTLL----NNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY--  244 (287)
Q Consensus       171 ~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~--  244 (287)
                      |+...+..+.    ..+.....+++|.-+|+..-+.         .--+.+|..+|++.+|+.+..++...   .+..  
T Consensus       933 ~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~ 1000 (1265)
T KOG1920|consen  933 PDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDWREALSLAAQLSEG---KDELVI 1000 (1265)
T ss_pred             cCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHH
Confidence            4554444433    3444556666666666554321         12456677777887777777766431   1221  


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +-..|+.-+...+++-+|.++..+.
T Consensus      1001 ~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen 1001 LAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             HHHHHHHHHHHcccchhHHHHHHHH
Confidence            2244555666666666666665554

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=86.68  E-value=3.5  Score=24.95  Aligned_cols=47  Identities=13%  Similarity=0.165  Sum_probs=25.4

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCc-c-hHhHHHHHHHHHhcCChHHHHHHH
Q 023133          220 RTGNIEESLRLFNDMKQQQIRP-S-IYVYRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~~~~~-~-~~~~~~li~~~~~~g~~~~a~~~~  266 (287)
                      ...+.++|+..|....+.-..| + ..++..++.+++..|++.+++++-
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455566666666665442222 1 234556666666666666665543

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=86.53  E-value=20  Score=30.93  Aligned_cols=127  Identities=12%  Similarity=0.046  Sum_probs=87.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh-ccC
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI-MTD   82 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~   82 (287)
                      .||.---.....+.+..+++.+...-|..-.-|......=.+.|..+.+.++|++-.. +++.+...|...+.-+. ..|
T Consensus        50 ~li~~~~~~~~~~~~r~~y~~fL~kyPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y~~f~~n~~~  128 (577)
T KOG1258|consen   50 TLIQENDSIEDVDALREVYDIFLSKYPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSYLAFLKNNNG  128 (577)
T ss_pred             HHHhccCchhHHHHHHHHHHHHHhhCccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHHHHHHhccCC
Confidence            3343333344456666777777765543325666666777788999999999999886 46677777777665444 557


Q ss_pred             ChHHHHHHHHHHHhc-CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           83 DCTQLLIFIEEVVQI-ASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      +.+.....|+.+.+. |.. .+...|...|.--..++++.....+++++.+
T Consensus       129 d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  129 DPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             CHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence            888888888877654 222 3456777778777778888888888888875

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.26  E-value=4.5  Score=27.05  Aligned_cols=59  Identities=12%  Similarity=0.188  Sum_probs=39.5

Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLI  250 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  250 (287)
                      +..+-+..+..-++.|+......-+.+|.+.+|+..|.++|+-.+.+ ..+....|-.++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence            45555666666677788888888888888888888888888877643 222233454444

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=86.17  E-value=25  Score=31.51  Aligned_cols=121  Identities=12%  Similarity=0.028  Sum_probs=75.0

Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCh--hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDF--ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      ++.--|+-++|..+.++|.... .|-.  .-...+..+|+-.|+.....+++.-.+.. ...|+.-+..+.-++.-..++
T Consensus       510 aL~~ygrqe~Ad~lI~el~~dk-dpilR~~Gm~t~alAy~GTgnnkair~lLh~aVsD-~nDDVrRaAVialGFVl~~dp  587 (929)
T KOG2062|consen  510 ALVVYGRQEDADPLIKELLRDK-DPILRYGGMYTLALAYVGTGNNKAIRRLLHVAVSD-VNDDVRRAAVIALGFVLFRDP  587 (929)
T ss_pred             HHHHhhhhhhhHHHHHHHhcCC-chhhhhhhHHHHHHHHhccCchhhHHHhhcccccc-cchHHHHHHHHHheeeEecCh
Confidence            3444566677788888876542 2211  11234555677778877777777665543 255666677777777777888


Q ss_pred             HHHHHHHHHHHhCCCCcchHhHHHHHH--HHHhcCChHHHHHHHHHHhh
Q 023133          225 EESLRLFNDMKQQQIRPSIYVYRSLID--NLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       225 ~~a~~~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~~~~  271 (287)
                      +....+.+-+.+. ..|.+..-.++.-  +|+-.|. .+|..+++-|..
T Consensus       588 ~~~~s~V~lLses-~N~HVRyGaA~ALGIaCAGtG~-~eAi~lLepl~~  634 (929)
T KOG2062|consen  588 EQLPSTVSLLSES-YNPHVRYGAAMALGIACAGTGL-KEAINLLEPLTS  634 (929)
T ss_pred             hhchHHHHHHhhh-cChhhhhhHHHHHhhhhcCCCc-HHHHHHHhhhhc
Confidence            8888888777664 4555554444443  3444443 578888877744

>PHA02875 ankyrin repeat protein; Provisional

Probab=86.09  E-value=19  Score=30.04  Aligned_cols=210  Identities=11%  Similarity=0.060  Sum_probs=103.7

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH--HHHHHHHHHhc
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD--CYTNFARAFIM   80 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~   80 (287)
                      +...++.|+.+-+..+++    .|..+.   ......+...+..|+.+    +.+.+.+.|..|+..  .....+...+.
T Consensus         6 L~~A~~~g~~~iv~~Ll~----~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~   77 (413)
T PHA02875          6 LCDAILFGELDIARRLLD----IGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVE   77 (413)
T ss_pred             HHHHHHhCCHHHHHHHHH----CCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHH
Confidence            444557788776666554    454433   12334455556677765    445555566655432  11223445566


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHH---HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh--HHHHHHHHHhcCCHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESII---VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT--YNIVLDILGRVGRVN  155 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~~~  155 (287)
                      .|+.+.+..+++    .|...+..   .-.+.+...+..|+.+    +++.+.+.|..|+...  -.+.+...+..|+.+
T Consensus        78 ~g~~~~v~~Ll~----~~~~~~~~~~~~g~tpL~~A~~~~~~~----iv~~Ll~~gad~~~~~~~g~tpLh~A~~~~~~~  149 (413)
T PHA02875         78 EGDVKAVEELLD----LGKFADDVFYKDGMTPLHLATILKKLD----IMKLLIARGADPDIPNTDKFSPLHLAVMMGDIK  149 (413)
T ss_pred             CCCHHHHHHHHH----cCCcccccccCCCCCHHHHHHHhCCHH----HHHHHHhCCCCCCCCCCCCCCHHHHHHHcCCHH
Confidence            788776555443    33211110   0123334445567664    4444445555554321  123344555677766


Q ss_pred             HHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH---HHHHHHHHHhcCCHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPD---FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT---YTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~a~~  229 (287)
                      -+..    +.+.|..++   ..-.+.+.. .+..|+.+    +.+.+.+.|..|+...   ...++......|+.+    
T Consensus       150 ~v~~----Ll~~g~~~~~~d~~g~TpL~~-A~~~g~~e----iv~~Ll~~ga~~n~~~~~~~~t~l~~A~~~~~~~----  216 (413)
T PHA02875        150 GIEL----LIDHKACLDIEDCCGCTPLII-AMAKGDIA----ICKMLLDSGANIDYFGKNGCVAALCYAIENNKID----  216 (413)
T ss_pred             HHHH----HHhcCCCCCCCCCCCCCHHHH-HHHcCCHH----HHHHHHhCCCCCCcCCCCCCchHHHHHHHcCCHH----
Confidence            5443    444554433   223333333 34556654    3444556666665432   123444445566654    


Q ss_pred             HHHHHHhCCCCcchH
Q 023133          230 LFNDMKQQQIRPSIY  244 (287)
Q Consensus       230 ~~~~~~~~~~~~~~~  244 (287)
                      +.+.+.+.|..++..
T Consensus       217 iv~~Ll~~gad~n~~  231 (413)
T PHA02875        217 IVRLFIKRGADCNIM  231 (413)
T ss_pred             HHHHHHHCCcCcchH
Confidence            455556677777653

>PRK10941 hypothetical protein; Provisional

Probab=86.00  E-value=11  Score=29.43  Aligned_cols=68  Identities=12%  Similarity=0.028  Sum_probs=38.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          212 TALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       212 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      +.|-.+|.+.++++.|+++.+.+.... +.+..-+.--.-.|.+.|.+..|..=++...+..|+.|...
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~-P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~  252 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFD-PEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISE  252 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHH
Confidence            344455666666666666666666531 22333344444456666666666666666666666665543

>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function

Probab=85.93  E-value=16  Score=29.27  Aligned_cols=146  Identities=14%  Similarity=0.048  Sum_probs=93.3

Q ss_pred             HHHHhhcCCCCchhHHHHHHHHhhcC------------ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           22 LQSLRDKNIFLPNAYNCVLVASAETN------------DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        22 ~~~~~~~~~~~~~~~~~l~~~~~~~~------------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      |++....++....+|-.++..--..-            -.+.-+.++++.++.+ +-+......++..+.+..+.+...+
T Consensus         8 l~~~v~~~P~di~~Wl~li~~Qd~~~~~~~~~~~~~~a~~E~klsilerAL~~n-p~~~~L~l~~l~~~~~~~~~~~l~~   86 (321)
T PF08424_consen    8 LNRRVRENPHDIEAWLELIEFQDELFRLQSSSKAERRALAERKLSILERALKHN-PDSERLLLGYLEEGEKVWDSEKLAK   86 (321)
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            33444444433366766665432221            1456678888888773 3456677778888999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHh---cCCHHHHHHHHHHHhc------CCC------CCCH-----hhHHHHHHHHH
Q 023133           90 FIEEVVQIASPESIIVVNRIIFAFAK---SRQIEKALLIFDHIKG------LKC------KPDL-----ITYNIVLDILG  149 (287)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~------~~~------~~~~-----~~~~~l~~~~~  149 (287)
                      -++++.... +.+...|...++....   .-.++....+|.+..+      .+.      .++.     ..+..+...+.
T Consensus        87 ~we~~l~~~-~~~~~LW~~yL~~~q~~~~~f~v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~  165 (321)
T PF08424_consen   87 KWEELLFKN-PGSPELWREYLDFRQSNFASFTVSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLR  165 (321)
T ss_pred             HHHHHHHHC-CCChHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHH
Confidence            999998875 5678888888876554   2245666666644322      111      0111     12333344456


Q ss_pred             hcCCHHHHHHHHHHHHHcCC
Q 023133          150 RVGRVNDMLNEFASMKEAGV  169 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~  169 (287)
                      +.|..+.|..+++.+.+.++
T Consensus       166 ~aG~~E~Ava~~Qa~lE~n~  185 (321)
T PF08424_consen  166 QAGYTERAVALWQALLEFNF  185 (321)
T ss_pred             HCCchHHHHHHHHHHHHHHc
Confidence            88999999999999988765

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=85.79  E-value=22  Score=30.71  Aligned_cols=183  Identities=15%  Similarity=0.139  Sum_probs=102.2

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..|..-+..-...|+++.+.-++++..-.- ..=...|-..++-....|+.+.+..++....+...+.++.+.-.-....
T Consensus       298 ~nw~~yLdf~i~~g~~~~~~~l~ercli~c-A~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  298 KNWRYYLDFEITLGDFSRVFILFERCLIPC-ALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHHhhhhhhcccHHHHHHHHHHHHhHH-hhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            567777777777888888877777765321 1123344445555555577777777777666655433332222222223


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHh-hHHHHHHHHHhcCCHHHHH---HHHHHHHHcCCCCChhHHHHHHHH-----HH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLI-TYNIVLDILGRVGRVNDML---NEFASMKEAGVVPDFISYNTLLNN-----LR  184 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~~-----~~  184 (287)
                      -..|+++.|..+++.+.+.-  |+.. .-..-+....+.|+.+.+.   .++....+...  +......+.--     +.
T Consensus       377 e~~~n~~~A~~~lq~i~~e~--pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~--~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  377 ESNGNFDDAKVILQRIESEY--PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKE--NNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HhhccHHHHHHHHHHHHhhC--CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhccccc--CcchhHHHHHHHHHHHHH
Confidence            34578888888888877652  4433 2222344455667777666   33333322211  21222222211     22


Q ss_pred             hcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC
Q 023133          185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG  222 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  222 (287)
                      -.++.+.|..++.++.+. .+++...|..+++.....+
T Consensus       453 i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            356778888888887766 3566666777776665544

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=85.71  E-value=2.6  Score=24.21  Aligned_cols=27  Identities=11%  Similarity=0.092  Sum_probs=14.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      -.-.+|.++...|++++|.++++.+.+
T Consensus        25 NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen   25 NHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            334455566666666666665555543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=85.69  E-value=7.2  Score=24.95  Aligned_cols=15  Identities=13%  Similarity=0.169  Sum_probs=6.1

Q ss_pred             HHhcCCHHHHHHHHH
Q 023133          113 FAKSRQIEKALLIFD  127 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~  127 (287)
                      +...|++++|..+.+
T Consensus        49 LmNrG~Yq~Al~l~~   63 (115)
T TIGR02508        49 LMNRGDYQSALQLGN   63 (115)
T ss_pred             HHccchHHHHHHhcC
Confidence            333444444444333

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=85.20  E-value=12  Score=27.00  Aligned_cols=17  Identities=18%  Similarity=0.104  Sum_probs=7.5

Q ss_pred             hhHHHHHHHHHhhcCCC
Q 023133           15 VSAAVRLLQSLRDKNIF   31 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~   31 (287)
                      ++.|.+.++.--..++.
T Consensus         7 FE~ark~aea~y~~nP~   23 (186)
T PF06552_consen    7 FEHARKKAEAAYAKNPL   23 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT
T ss_pred             HHHHHHHHHHHHHhCcH
Confidence            34455555554444443

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=84.43  E-value=16  Score=27.79  Aligned_cols=114  Identities=10%  Similarity=-0.020  Sum_probs=55.1

Q ss_pred             hcCChhHHHHHHHHHHHhcCCCCH-HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSSRTLSS-DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL  123 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  123 (287)
                      ....++.|+..|.+.+.  +.|+. ..|..-+-++.+..+++.+..--...++.. +..+-....+.........+++|+
T Consensus        22 ~~k~y~~ai~~y~raI~--~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~-~N~vk~h~flg~~~l~s~~~~eaI   98 (284)
T KOG4642|consen   22 IPKRYDDAIDCYSRAIC--INPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLD-PNLVKAHYFLGQWLLQSKGYDEAI   98 (284)
T ss_pred             chhhhchHHHHHHHHHh--cCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcC-hHHHHHHHHHHHHHHhhccccHHH
Confidence            34445556655554443  34444 333444455555666666655555555542 222333334445555556666666


Q ss_pred             HHHHHHh----cCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133          124 LIFDHIK----GLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus       124 ~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      ..+.+..    +..+.+....+..|..+--+.-...+..++.
T Consensus        99 ~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~  140 (284)
T KOG4642|consen   99 KVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIR  140 (284)
T ss_pred             HHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHH
Confidence            6665542    2233344445555555443333344444433

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=83.73  E-value=14  Score=26.64  Aligned_cols=62  Identities=19%  Similarity=0.181  Sum_probs=30.8

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC-----------HHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ-----------IEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      +++|..-|++.+... |....++..+..+|...+.           +++|...|++....  .|+...|+.-+...
T Consensus        51 iedAisK~eeAL~I~-P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~--~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   51 IEDAISKFEEALKIN-PNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDE--DPNNELYRKSLEMA  123 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhc--CCCcHHHHHHHHHH
Confidence            344555555555654 3344566667666665432           33444444444433  56666666665554

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=83.12  E-value=13  Score=25.76  Aligned_cols=47  Identities=23%  Similarity=0.326  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          209 LTYTALIDSFGRTGN-IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      ..|.+++.+..+..- --.+..+|+-+.+.+.+++..-|..+|.++.+
T Consensus        80 ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen   80 SSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALR  127 (145)
T ss_pred             chHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Confidence            345555555544333 22234445555544455555555555555444

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=82.73  E-value=21  Score=27.95  Aligned_cols=124  Identities=19%  Similarity=0.130  Sum_probs=57.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCHhh-------HHHHHHHHHhcCCHHHHHHHHHHHH----HcCCCCChhHHHHH
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLKCKPDLIT-------YNIVLDILGRVGRVNDMLNEFASMK----EAGVVPDFISYNTL  179 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l  179 (287)
                      +-..+.+++++|+..+.++...|+..|..+       ...+...|...|++..--++.....    +..-+-......++
T Consensus        11 ~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~KiirtL   90 (421)
T COG5159          11 NNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRTL   90 (421)
T ss_pred             HHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHHH
Confidence            334455666666666666665555444332       2344555555555544333332221    11111122333444


Q ss_pred             HHHHHhc-CchHHHHHHHHHHhhCCCcCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          180 LNNLRKI-RRLDLCLIYFREMGESGIKPD-----LLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       180 ~~~~~~~-~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      +..+... ..++..+.+.....+...+..     ...-.-++..+.+.|.+.+|+.+.+.+
T Consensus        91 iekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~l  151 (421)
T COG5159          91 IEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPL  151 (421)
T ss_pred             HHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            4443322 234444444444333211111     112234677778888888887765544

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.54  E-value=17  Score=26.66  Aligned_cols=87  Identities=11%  Similarity=-0.000  Sum_probs=41.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHH-----HHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLKCKPDLITYN-----IVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK  185 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  185 (287)
                      ..+..++++++|+..++.....   |....+.     .|.+.....|.+++|+.+++...+.+..  ......-...+..
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~  171 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLA  171 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHH
Confidence            3455566666666666555432   2222222     2334445556666666655554443221  1112223344555


Q ss_pred             cCchHHHHHHHHHHhhC
Q 023133          186 IRRLDLCLIYFREMGES  202 (287)
Q Consensus       186 ~~~~~~a~~~~~~~~~~  202 (287)
                      .|+-++|..-|....+.
T Consensus       172 kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         172 KGDKQEARAAYEKALES  188 (207)
T ss_pred             cCchHHHHHHHHHHHHc
Confidence            56666666666555554

>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]

Probab=82.22  E-value=12  Score=25.99  Aligned_cols=45  Identities=16%  Similarity=0.103  Sum_probs=19.4

Q ss_pred             HhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH
Q 023133           25 LRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD   69 (287)
Q Consensus        25 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~   69 (287)
                      +.+.|...+.--..++..+.+.++.-.|.++++++.+.+...+..
T Consensus        12 lk~~glr~T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~isla   56 (145)
T COG0735          12 LKEAGLRLTPQRLAVLELLLEADGHLSAEELYEELREEGPGISLA   56 (145)
T ss_pred             HHHcCCCcCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHh
Confidence            333444333334444444444444444445555554444333333

>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]

Probab=82.01  E-value=24  Score=31.20  Aligned_cols=74  Identities=18%  Similarity=0.159  Sum_probs=53.5

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhH------HHHHHHHHHHhcCCCCHHHHHHH
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDL------SFQILKDLLVSSRTLSSDCYTNF   74 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~------a~~~~~~~~~~~~~~~~~~~~~l   74 (287)
                      +|..+|...|++-.+..+++.....+....   ..+|..++...+.|.++.      +.+.+++   ..+.-|..||..+
T Consensus        33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~---a~ln~d~~t~all  109 (1117)
T COG5108          33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQ---ARLNGDSLTYALL  109 (1117)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHH---hhcCCcchHHHHH
Confidence            688999999999999999998876543322   678888999999998653      2333333   3356677888877


Q ss_pred             HHHHhc
Q 023133           75 ARAFIM   80 (287)
Q Consensus        75 ~~~~~~   80 (287)
                      +.+-..
T Consensus       110 ~~~sln  115 (1117)
T COG5108         110 CQASLN  115 (1117)
T ss_pred             HHhhcC
Confidence            766554

>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH

Probab=81.84  E-value=15  Score=26.51  Aligned_cols=20  Identities=0%  Similarity=0.066  Sum_probs=10.8

Q ss_pred             HHhccCChHHHHHHHHHHHh
Q 023133           77 AFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~   96 (287)
                      .|.+.|.+++|.+++++..+
T Consensus       120 VCm~~g~Fk~A~eiLkr~~~  139 (200)
T cd00280         120 VCMENGEFKKAEEVLKRLFS  139 (200)
T ss_pred             HHHhcCchHHHHHHHHHHhc
Confidence            45555555555555555544

Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.

>PRK09687 putative lyase; Provisional

Probab=81.73  E-value=23  Score=27.77  Aligned_cols=199  Identities=15%  Similarity=0.067  Sum_probs=119.9

Q ss_pred             hHHHHHHHHhhcCCh----hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh-----HHHHHHHHHHHhcCCCCcHHH
Q 023133           35 AYNCVLVASAETNDI----DLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC-----TQLLIFIEEVVQIASPESIIV  105 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~  105 (287)
                      .-...+.++++.|+.    +++...+..+...  .++...-...+.++...+..     ..+...+.....   .++..+
T Consensus        70 vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~V  144 (280)
T PRK09687         70 ERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNV  144 (280)
T ss_pred             HHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhh---CCCHHH
Confidence            455556666677653    4566667666432  44555555555555544321     223333333222   345666


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG-RVNDMLNEFASMKEAGVVPDFISYNTLLNNLR  184 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  184 (287)
                      -...+.++.+.++ +++...+-.+.+   .++...-...+.++.+.+ +...+...+..+...   ++...-...+.++.
T Consensus       145 R~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~D---~~~~VR~~A~~aLg  217 (280)
T PRK09687        145 RFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQD---KNEEIRIEAIIGLA  217 (280)
T ss_pred             HHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhcC---CChHHHHHHHHHHH
Confidence            6777788888877 456666666665   345555555556666543 244566666666643   46677777888888


Q ss_pred             hcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHH
Q 023133          185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  254 (287)
                      +.++. .+...+-...+.+   +  .....+.++...|+. +|...+..+.+.  .||..+-...+.++.
T Consensus       218 ~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        218 LRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             ccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            88884 5666665555543   2  234677888888885 688888888864  357776666666553

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=81.30  E-value=22  Score=27.11  Aligned_cols=118  Identities=6%  Similarity=-0.078  Sum_probs=81.3

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHH-HHHHHHHHhccCChHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDC-YTNFARAFIMTDDCTQL   87 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a   87 (287)
                      |....+++.|+.-|.+....++.+..-|..-+.++.+..+++.+..--.+.++  +.|+..- ...+..+......++.|
T Consensus        20 ~f~~k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralq--l~~N~vk~h~flg~~~l~s~~~~ea   97 (284)
T KOG4642|consen   20 CFIPKRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQ--LDPNLVKAHYFLGQWLLQSKGYDEA   97 (284)
T ss_pred             ccchhhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHh--cChHHHHHHHHHHHHHHhhccccHH
Confidence            34456788999988888887776666778888888999999988877666665  4566543 33455667788899999


Q ss_pred             HHHHHHHHhc----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           88 LIFIEEVVQI----ASPESIIVVNRIIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus        88 ~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  128 (287)
                      +..+.+..+.    .+++.......|..+=-+.=...+..++.++
T Consensus        98 I~~Lqra~sl~r~~~~~~~~di~~~L~~ak~~~w~v~e~~Ri~Q~  142 (284)
T KOG4642|consen   98 IKVLQRAYSLLREQPFTFGDDIPKALRDAKKKRWEVSEEKRIRQE  142 (284)
T ss_pred             HHHHHHHHHHHhcCCCCCcchHHHHHHHHHhCccchhHHHHHHHH
Confidence            9999887433    3445556677776654444444555554444

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=81.02  E-value=12  Score=24.00  Aligned_cols=50  Identities=16%  Similarity=0.151  Sum_probs=20.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      +...|++++|..+.+.+    ..||...|..+..  .+.|-.+++..-+.++...|
T Consensus        49 LmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg   98 (115)
T TIGR02508        49 LMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG   98 (115)
T ss_pred             HHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC
Confidence            33444555554444333    2344444444332  23344444444444444433

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.

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=80.87  E-value=34  Score=29.06  Aligned_cols=88  Identities=9%  Similarity=-0.028  Sum_probs=43.2

Q ss_pred             HhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHH
Q 023133           43 SAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKA  122 (287)
Q Consensus        43 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  122 (287)
                      +...|+++.+...+...... +.....+...+++.....++++.|...-..|+...++ +..+........-..|-++++
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC-ChhheeeecccHHHHhHHHHH
Confidence            44556666665555444322 2233445555556666666666666666555544432 222222222223334555666


Q ss_pred             HHHHHHHhcC
Q 023133          123 LLIFDHIKGL  132 (287)
Q Consensus       123 ~~~~~~~~~~  132 (287)
                      ...++++...
T Consensus       411 ~~~wk~~~~~  420 (831)
T PRK15180        411 YHYWKRVLLL  420 (831)
T ss_pred             HHHHHHHhcc
Confidence            6666655543

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.73  E-value=31  Score=28.52  Aligned_cols=91  Identities=11%  Similarity=0.079  Sum_probs=47.1

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhc--CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhc---------CCCCc
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSS--RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQI---------ASPES  102 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~  102 (287)
                      ..+.-+...|...|+++.|++.|.+.+.--  .+.....|..+|..-.-.|+|..+..+..+..+.         .+++.
T Consensus       151 ra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~k  230 (466)
T KOG0686|consen  151 RALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAK  230 (466)
T ss_pred             HHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcc
Confidence            466666666666777777777666643321  1122334444555555556666555555544332         12344


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIF  126 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~  126 (287)
                      ...+..+.....+  ++..|.+.|
T Consensus       231 l~C~agLa~L~lk--kyk~aa~~f  252 (466)
T KOG0686|consen  231 LKCAAGLANLLLK--KYKSAAKYF  252 (466)
T ss_pred             hHHHHHHHHHHHH--HHHHHHHHH
Confidence            4445555444333  555555544

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=80.33  E-value=48  Score=30.45  Aligned_cols=260  Identities=14%  Similarity=0.120  Sum_probs=143.0

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhc----C----------CCCc---hhH--HHHHHH--HhhcCChhHHHHHHHHHHHhcC
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDK----N----------IFLP---NAY--NCVLVA--SAETNDIDLSFQILKDLLVSSR   64 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~----~----------~~~~---~~~--~~l~~~--~~~~~~~~~a~~~~~~~~~~~~   64 (287)
                      |.-.+..|+++.|..++++....    +          ..|+   ...  -.+..+  .....++++|..++.++...-.
T Consensus       367 I~hAlaA~d~~~aa~lle~~~~~L~~~~~lsll~~~~~~lP~~~l~~~P~Lvll~aW~~~s~~r~~ea~~li~~l~~~l~  446 (894)
T COG2909         367 IDHALAAGDPEMAADLLEQLEWQLFNGSELSLLLAWLKALPAELLASTPRLVLLQAWLLASQHRLAEAETLIARLEHFLK  446 (894)
T ss_pred             HHHHHhCCCHHHHHHHHHhhhhhhhcccchHHHHHHHHhCCHHHHhhCchHHHHHHHHHHHccChHHHHHHHHHHHHHhC
Confidence            45556788888888888765111    1          1111   111  122222  3456789999999888765422


Q ss_pred             CCCH----H---HHHHHH-HHHhccCChHHHHHHHHHHHhc----CCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           65 TLSS----D---CYTNFA-RAFIMTDDCTQLLIFIEEVVQI----ASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        65 ~~~~----~---~~~~l~-~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .|+.    .   .++.+- ......|+++.+.++.+...+.    ...+....+..+..+..-.|++++|..+..+..+.
T Consensus       447 ~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~  526 (894)
T COG2909         447 APMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQM  526 (894)
T ss_pred             cCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHH
Confidence            2221    1   333332 2234568889998888776543    23456677788888888999999999988766543


Q ss_pred             CCCCCHhhH---HHH--HHHHHhcCC--HHHHHHHHHHHHHc-----CC-CCChhHHHHHHHHHHhcCchHHHHHH----
Q 023133          133 KCKPDLITY---NIV--LDILGRVGR--VNDMLNEFASMKEA-----GV-VPDFISYNTLLNNLRKIRRLDLCLIY----  195 (287)
Q Consensus       133 ~~~~~~~~~---~~l--~~~~~~~~~--~~~a~~~~~~~~~~-----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~----  195 (287)
                      .-..++..+   ..+  ...+...|+  +.+....|......     .. .+-..++..+..++.+   .+.+..-    
T Consensus       527 a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r---~~~~~~ear~~  603 (894)
T COG2909         527 ARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLR---LDLAEAEARLG  603 (894)
T ss_pred             HHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHH---HhhhhHHhhhc
Confidence            212343333   322  233556673  33333334433222     11 1123445555555554   3333222    


Q ss_pred             HHHHhhCCCcCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHhCCC----CcchHhHHHHHHH--HHhcCChHHHHHHHH
Q 023133          196 FREMGESGIKPDLLTY--TALIDSFGRTGNIEESLRLFNDMKQQQI----RPSIYVYRSLIDN--LKKMGKVDLAMTIFE  267 (287)
Q Consensus       196 ~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~li~~--~~~~g~~~~a~~~~~  267 (287)
                      +.--......|-....  ..|+......|+.++|...++++.....    .++...-...+..  -...|+.+++.....
T Consensus       604 ~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~~v~~~lwl~qg~~~~a~~~l~  683 (894)
T COG2909         604 IEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAYKVKLILWLAQGDKELAAEWLL  683 (894)
T ss_pred             chhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHHHhhHHHhcccCCHHHHHHHHH
Confidence            2222222112222222  3677888899999999999998875422    2333333333333  235688888877776


Q ss_pred             H
Q 023133          268 E  268 (287)
Q Consensus       268 ~  268 (287)
                      +
T Consensus       684 ~  684 (894)
T COG2909         684 K  684 (894)
T ss_pred             h
Confidence            6

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.15  E-value=50  Score=30.60  Aligned_cols=27  Identities=22%  Similarity=0.315  Sum_probs=22.7

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLV   61 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~   61 (287)
                      -|..|+..|...|..++|++++.+...
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d  532 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVD  532 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhc
Confidence            488888888888888899888888865

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=80.10  E-value=27  Score=27.42  Aligned_cols=21  Identities=19%  Similarity=0.324  Sum_probs=12.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHH
Q 023133          143 IVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus       143 ~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      -++..+.+.|.+.+|+.+...
T Consensus       130 Kli~l~y~~~~YsdalalIn~  150 (421)
T COG5159         130 KLIYLLYKTGKYSDALALINP  150 (421)
T ss_pred             HHHHHHHhcccHHHHHHHHHH
Confidence            355666667777766655433

---

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	287
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-19
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-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 = 86.8 bits (213), Expect = 3e-19
 Identities = 16/163 (9%), Positives = 46/163 (28%), Gaps = 4/163 (2%)

Query: 114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI---LGRVGRVNDMLNEFASMKEAGVV 170
                ++            +                   ++   + +L      ++   +
Sbjct: 103 PGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKL 162

Query: 171 PDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL-R 229
                YN ++    +       +     + ++G+ PDLL+Y A +   GR      ++ R
Sbjct: 163 LTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIER 222

Query: 230 LFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS 272
               M Q+ ++        L+    +   +     +    +  
Sbjct: 223 CLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLP 265

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 68.7 bits (166), Expect = 4e-13
 Identities = 26/194 (13%), Positives = 63/194 (32%), Gaps = 6/194 (3%)

Query: 86  QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVL 145
            LL+      Q     ++ + N ++  +A+    ++ + +   +K     PDL++Y   L
Sbjct: 148 HLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAAL 207

Query: 146 DILGRVGRVNDMLNE-FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGI 204
             +GR  +    +      M + G+    +    LL+   +   L               
Sbjct: 208 QCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQ 267

Query: 205 KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVY-----RSLIDNLKKMGKV 259
            P  +  + L+             +L   +K  Q      ++     R  + +++K    
Sbjct: 268 LPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLP 327

Query: 260 DLAMTIFEEMNSSL 273
              +    +   +L
Sbjct: 328 SKEVKHARKTLKTL 341

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.0 bits (134), Expect = 5e-09
 Identities = 51/318 (16%), Positives = 92/318 (28%), Gaps = 93/318 (29%)

Query: 22  LQSLRD-KNIFLPNAYNC---VLVASAETNDIDL----SFQIL----------KDLLVSS 63
           L  LR  KN+ +          +          +     F+I           + +L   
Sbjct: 144 LLELRPAKNVLIDGVLGSGKTWVALDV-CLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202

Query: 64  RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL 123
           + L    Y       I  +  ++        ++I    SI    R +    KS+  E  L
Sbjct: 203 QKL---LYQ------IDPNWTSRSDHSSNIKLRI---HSIQAELRRLL---KSKPYENCL 247

Query: 124 LIFDHIK--------GLKCKPDLITYNI-VLDILGRVGRVNDMLNEFASMKEAGVVPD-- 172
           L+  +++         L CK  L T    V D L      +  L+         + PD  
Sbjct: 248 LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHH----SMTLTPDEV 303

Query: 173 ---FISY-NTLLNNLR----KIRRLDLCLIYFREMGESGIKPDLLTY----TALIDSFGR 220
               + Y +    +L           L +I      ES I+  L T+        D    
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSII-----AES-IRDGLATWDNWKHVNCDKLTT 357

Query: 221 TGNIEESLRLFNDMKQQQIRPSIYVYRSL-I--DNLKKMGKV----------DLAMTIFE 267
              IE SL +    + ++      ++  L +   +      +             M +  
Sbjct: 358 I--IESSLNVLEPAEYRK------MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 268 EM-NSSLSDLAGPKDFKR 284
           ++   SL +    K  K 
Sbjct: 410 KLHKYSLVE----KQPKE 423

>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 = 48.3 bits (114), Expect = 2e-06
 Identities = 44/274 (16%), Positives = 84/274 (30%), Gaps = 72/274 (26%)

Query: 45  ETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESII 104
           ET +    +   KD+L           + F  AF+   DC  +    + ++     + II
Sbjct: 10  ETGEHQYQY---KDIL-----------SVFEDAFVDNFDCKDVQDMPKSILSKEEIDHII 55

Query: 105 ----VVNRIIFAF----AKSRQIEKALL----------IFDHIKGLKCKPDLIT--YNIV 144
                V+  +  F    +K  ++ +  +          +   IK  + +P ++T  Y   
Sbjct: 56  MSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115

Query: 145 LDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGI 204
            D L    +V    N          V     Y  L   L ++R     LI    +  SG 
Sbjct: 116 RDRLYNDNQVFAKYN----------VSRLQPYLKLRQALLELRPAKNVLID--GVLGSG- 162

Query: 205 KPDLLTYTALID--------------SFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLI 250
           K   +     +               +     + E  L +   +   QI P+   + S  
Sbjct: 163 K-TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL-LYQIDPN---WTSRS 217

Query: 251 DNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKR 284
           D+   +            + + L  L   K ++ 
Sbjct: 218 DHSSNI------KLRIHSIQAELRRLLKSKPYEN 245

>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 = 40.6 bits (94), Expect = 4e-04
 Identities = 51/347 (14%), Positives = 113/347 (32%), Gaps = 92/347 (26%)

Query: 6   IEKLCKAGN-VSAAVRLLQSLRDKN-----IFL-----PNAYNCVLVASAETNDIDLSFQ 54
           I+ +  + + VS  +RL  +L  K       F+      N Y   L++  +T     S  
Sbjct: 51  IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-YK-FLMSPIKTEQRQPS-- 106

Query: 55  ILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA 114
           ++  + +  R    +    FA+  +      Q  + + + +    P   ++++  +    
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVSR---LQPYLKLRQALLELRPAKNVLIDG-VLGSG 162

Query: 115 KS-------RQIEKALLIFDHI----KGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS 163
           K+          +    +   I          P+ +     L++L        +L +   
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-----LEML------QKLLYQIDP 211

Query: 164 MKEAGV---VPDFISYNTLLNNLRKI---RRLDLCLIYFREMGESG-IKP-D-----LLT 210
              +         +  +++   LR++   +  + CL+    +  +      +     LLT
Sbjct: 212 NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLT 271

Query: 211 --YTALID--SFGRTGNI-----------EESLRLF--------NDMKQQ--QIRP---- 241
             +  + D  S   T +I           +E   L          D+ ++     P    
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 242 ----SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKR 284
               SI    +  DN K +    L   I     SSL+ L  P ++++
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTII----ESSLNVLE-PAEYRK 373

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	287
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	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
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	99.94
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.94
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.91
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.91
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.88
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.86
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.84
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.83
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.82
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.82
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.82
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.81
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.81
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.8
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.8
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.79
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.79
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.79
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.79
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.78
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.76
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.75
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.75
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.74
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.73
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.73
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.72
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.71
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.71
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.71
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.7
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.68
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.68
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.67
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.63
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.62
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.62
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.61
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.61
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.61
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.6
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.59
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.58
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.58
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.58
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.57
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.57
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.56
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.55
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.55
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.53
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.48
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.46
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.45
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.44
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.42
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.41
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.4
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.4
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.4
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.39
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.37
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.36
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.36
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.35
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.35
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.34
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.34
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.33
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.31
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.31
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.31
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.31
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.31
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.31
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.3
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.3
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.29
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.25
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.22
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.22
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.18
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.18
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.17
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.15
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.13
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.12
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.12
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.11
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.11
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.1
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.1
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.09
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.09
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.08
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.07
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.07
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	99.07
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.05
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.04
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.03
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.03
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.03
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.02
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.01
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	99.0
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.99
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.99
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.98
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.98
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.97
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.94
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.94
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.93
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.93
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.92
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.88
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.86
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.86
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.85
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.85
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.85
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.85
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.84
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.82
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.81
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.81
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.8
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.8
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.76
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.75
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.75
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.75
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.75
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.75
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.74
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.74
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.73
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.72
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.72
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.69
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.69
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.68
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.67
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.63
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.63
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.57
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.57
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.55
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.54
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.53
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.5
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.5
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.49
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.48
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.48
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.47
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.45
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.44
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.4
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.39
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.34
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.29
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.24
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.22
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.19
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.11
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.08
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.99
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.86
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.85
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.83
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.82
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.82
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.67
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.65
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.59
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.59
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.58
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.56
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.54
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.52
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.41
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	97.34
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.28
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.1
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.09
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.94
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.91
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.77
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.76
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.7
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.68
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	96.34
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.3
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.29
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.28
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.24
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.21
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.12
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	95.82
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.69
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.3
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.07
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	95.04
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.01
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.99
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.39
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.15
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	93.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.51
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.46
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.1
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.05
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.85
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.75
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	91.63
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.54
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.39
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.42
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	89.35
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.12
2p58_C	116	Putative type III secretion protein YSCG; type III	88.81
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	88.41
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.95
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.38
4b4t_S	523	RPN3, 26S proteasome regulatory subunit RPN3; hydr	87.15
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.84
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	85.28
2p58_C	116	Putative type III secretion protein YSCG; type III	85.24
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	85.09
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.49
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	84.42
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	83.25
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	82.76
2nsz_A	129	Programmed cell death protein 4; PDCD4, tumor supp	82.53
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	81.83
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	81.74
3pvs_A	447	Replication-associated recombination protein A; ma	81.44
2r9g_A	204	AAA ATPase, central region; structural genomics, P	80.42

>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=5.1e-37  Score=253.77  Aligned_cols=211  Identities=15%  Similarity=0.147  Sum_probs=109.9

Q ss_pred             HHHHHHHhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHh
Q 023133           19 VRLLQSLRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        19 ~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   96 (287)
                      ..+.+.+.+.+....  ..++.+|.+|++.|++++|+++|++|.+.|+.||..+|+.||.+|++.+....+         
T Consensus        10 e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~---------   80 (501)
T 4g26_A           10 ENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES---------   80 (501)
T ss_dssp             --------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS---------
T ss_pred             HHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh---------
Confidence            334444444443322  345555666666666666666666666666666666666666665544331100         


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHH
Q 023133           97 IASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISY  176 (287)
Q Consensus        97 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  176 (287)
                                       .+.+.+++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|+.||..+|
T Consensus        81 -----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~ty  143 (501)
T 4g26_A           81 -----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSY  143 (501)
T ss_dssp             -----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             -----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCcccee
Confidence                             011224555555555555555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          177 NTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       177 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      +.+|.+|++.|++++|.++|++|.+.|+.||..||+.||.+|++.|+.++|.++|++|.+.|..|+..||+.++..|..
T Consensus       144 n~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          144 GPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            5555555555555555555555555555555555555555555555555555555555555555555555555555543

>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=5.8e-37  Score=253.43  Aligned_cols=184  Identities=15%  Similarity=0.248  Sum_probs=143.0

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCC---------hhHHHHHHHHHHHhcCCCCHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETND---------IDLSFQILKDLLVSSRTLSSDCY   71 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~~   71 (287)
                      ++.+|++|++.|++++|.++|++|.+.|+.|+ .+|+.||.+|++.+.         +++|.++|++|...|+.||..||
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            67889999999999999999999999999999 999999999988765         45677777777777777777777


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc
Q 023133           72 TNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV  151 (287)
Q Consensus        72 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  151 (287)
                      +.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            77777777777777777777777777777777777777777777777777777777777777777777777777777777


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh
Q 023133          152 GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK  185 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  185 (287)
                      |++++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       189 g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            7777777777777777777777777777766654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=4.3e-30  Score=219.04  Aligned_cols=274  Identities=10%  Similarity=0.027  Sum_probs=246.9

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |+.++..|.+.|++++|.++|+++.+.++....++..++.++.+.|++++|..+++++.+. .+.+..++..++..|.+.
T Consensus       308 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~  386 (597)
T 2xpi_A          308 LLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLCV  386 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHh
Confidence            6789999999999999999999999887655589999999999999999999999999865 355788999999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      |++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|
T Consensus       387 g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  464 (597)
T 2xpi_A          387 NKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYL  464 (597)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999998875 5678899999999999999999999999998775 457889999999999999999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKPD--LLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +++.+.... +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++++++.
T Consensus       465 ~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  543 (597)
T 2xpi_A          465 QSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGL  543 (597)
T ss_dssp             HHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            999887543 7889999999999999999999999999865    66777  7899999999999999999999999998


Q ss_pred             hCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          236 QQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       236 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      +.+ +.+..+|..+..+|.+.|++++|.++|+++.+..|+++...
T Consensus       544 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~  587 (597)
T 2xpi_A          544 LLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMAS  587 (597)
T ss_dssp             HHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHH
Confidence            764 45789999999999999999999999999999999876543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=7.9e-29  Score=211.24  Aligned_cols=239  Identities=11%  Similarity=0.060  Sum_probs=201.9

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .+++.++.++.+.|++++|+++|+++.+.+ +.+..++..++.++.+.|++++|.++++++.+.. +.+..+++.++.+|
T Consensus       306 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  383 (597)
T 2xpi_A          306 DLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYY  383 (597)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHH
Confidence            567777777777888888888888877654 3356677777777888888888888888777654 56788999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      .+.|++++|.++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+. .+..+|..++.+|.+.|++++|.
T Consensus       384 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~  461 (597)
T 2xpi_A          384 LCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQ-GTHLPYLFLGMQHMQLGNILLAN  461 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTT-TCSHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999987753 34677999999999999999999999999988753 37889999999999999999999


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCcc--hHhHHHHHHHHHhcCChHHHHHHHH
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QIRPS--IYVYRSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~  267 (287)
                      ++|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|.++|+
T Consensus       462 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~  540 (597)
T 2xpi_A          462 EYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALN  540 (597)
T ss_dssp             HHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999998764 457889999999999999999999999999865    66777  7899999999999999999999999


Q ss_pred             HHhhcCCCCC
Q 023133          268 EMNSSLSDLA  277 (287)
Q Consensus       268 ~~~~~~~~~~  277 (287)
                      ++.+..|+.+
T Consensus       541 ~~~~~~p~~~  550 (597)
T 2xpi_A          541 QGLLLSTNDA  550 (597)
T ss_dssp             HHHHHSSCCH
T ss_pred             HHHHhCCCCh
Confidence            9988877654

>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=99.96  E-value=2.8e-25  Score=179.70  Aligned_cols=271  Identities=13%  Similarity=0.094  Sum_probs=180.1

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..+...|.+.|++++|+..|+++...++....+|..+..++.+.|++++|.+.++++.+.. +.+...+..+...+...
T Consensus        70 ~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  148 (388)
T 1w3b_A           70 YSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKAL  148 (388)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHc
Confidence            45666677777777777777777666554333566666666666666666666666666542 12233444555555556


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC----------------------------
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK----------------------------  133 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----------------------------  133 (287)
                      |++++|.+.|+++.+.. +.+..+|..+...+.+.|++++|...|+++.+.+                            
T Consensus       149 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~  227 (388)
T 1w3b_A          149 GRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYL  227 (388)
T ss_dssp             SCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            66666666666665543 3445555555555555555555555555544321                            


Q ss_pred             ----CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH
Q 023133          134 ----CKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL  208 (287)
Q Consensus       134 ----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  208 (287)
                          ..| +..++..+..++.+.|++++|...|+++.+.+.. +..+|..+...+.+.|++++|...++++.+.. +.+.
T Consensus       228 ~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~  305 (388)
T 1w3b_A          228 RALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHA  305 (388)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccH
Confidence                022 3456667777777788888888888887775432 45677777888888888888888888877653 5567


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .++..+...+...|++++|.+.++++.+. .+.+..++..+...+.+.|++++|.+.|+++.+..|+.+
T Consensus       306 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~  373 (388)
T 1w3b_A          306 DSLNNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFA  373 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCH
Confidence            77888888888888888888888888764 234566778888888888888888888888887777653

>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=4.5e-25  Score=178.48  Aligned_cols=268  Identities=12%  Similarity=0.102  Sum_probs=195.4

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +..+...+...|++++|...++...+.++....+|..+..++.+.|++++|+..|+++.... +.+..++..+..++...
T Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  114 (388)
T 1w3b_A           36 LLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAA  114 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHc
Confidence            34567788899999999999999988876555899999999999999999999999998753 33566899999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      |++++|.+.++++.+.. |.+...+..+...+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|...|
T Consensus       115 g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  192 (388)
T 1w3b_A          115 GDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHF  192 (388)
T ss_dssp             SCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999999886 5667788889999999999999999999998763 345678999999999999999999999


Q ss_pred             HHHHHcCCCCChhHHH----------------------------------HHHHHHHhcCchHHHHHHHHHHhhCCCcCC
Q 023133          162 ASMKEAGVVPDFISYN----------------------------------TLLNNLRKIRRLDLCLIYFREMGESGIKPD  207 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~----------------------------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  207 (287)
                      +++.+.+.. +...|.                                  .+...+.+.|++++|.+.++++.+.+ +.+
T Consensus       193 ~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~  270 (388)
T 1w3b_A          193 EKAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHF  270 (388)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSC
T ss_pred             HHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCC
Confidence            988765432 333444                                  44444555555555555555554432 223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          208 LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       208 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ..+|..+..++.+.|++++|.+.|+++.+. .+.+..++..+...+...|++++|.+.++++.+..|+
T Consensus       271 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  337 (388)
T 1w3b_A          271 PDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPE  337 (388)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            444555555555555555555555555543 1334455555555555555555555555555555444

>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=6.1e-24  Score=175.02  Aligned_cols=271  Identities=11%  Similarity=0.044  Sum_probs=157.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      ..+...+.+.|++++|+.+|+++.+..+....++..+..++...|++++|+..++++.+.+ +.+...+..+..++...|
T Consensus        30 ~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  108 (450)
T 2y4t_A           30 LELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQG  108 (450)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcC
Confidence            3444555555555555555555554433323445555555555555555555555554432 223444444444455555


Q ss_pred             ChHHHHHHHHHHHhcCC------------------------------------------------CCcHHHHHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIAS------------------------------------------------PESIIVVNRIIFAFA  114 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~------------------------------------------------~~~~~~~~~l~~~~~  114 (287)
                      ++++|.+.|+++.+...                                                +.+..++..+..+|.
T Consensus       109 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  188 (450)
T 2y4t_A          109 KLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELRELRAECFI  188 (450)
T ss_dssp             CHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            55555555544444321                                                334455555555556


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHH------------HHH
Q 023133          115 KSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTL------------LNN  182 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l------------~~~  182 (287)
                      +.|++++|...|+++.+.. +.+..+|..+..+|...|++++|...|+++.+.... +...+..+            ...
T Consensus       189 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~  266 (450)
T 2y4t_A          189 KEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEE  266 (450)
T ss_dssp             HTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666665554432 334556666666677777777777777776654321 33333333            566


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcC
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPD-----LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMG  257 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  257 (287)
                      +.+.|++++|..+|+++.+.  .|+     ...+..+..++.+.|++++|...++++.+.. +.+...+..+..+|...|
T Consensus       267 ~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~~  343 (450)
T 2y4t_A          267 LIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYLIEE  343 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            67777777777777777654  233     3456677777777788888888887777542 335677777778888888


Q ss_pred             ChHHHHHHHHHHhhcCCCCCCh
Q 023133          258 KVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       258 ~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      ++++|...|+++.+..|+.+..
T Consensus       344 ~~~~A~~~~~~al~~~p~~~~~  365 (450)
T 2y4t_A          344 MYDEAIQDYETAQEHNENDQQI  365 (450)
T ss_dssp             CHHHHHHHHHHHHTTSSSCHHH
T ss_pred             CHHHHHHHHHHHHHhCcchHHH
Confidence            8888888888887777766443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.94  E-value=9.6e-24  Score=173.85  Aligned_cols=257  Identities=10%  Similarity=-0.002  Sum_probs=194.0

Q ss_pred             hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEV   94 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   94 (287)
                      ...+...+.+....++.....+..++..+.+.|++++|+.+|+++.+.. +.+..++..+..++...|++++|...++++
T Consensus         8 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A            8 SSGVDLGTENLYFQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             ---------------CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccccccccccccccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            3445555666666555444889999999999999999999999998763 457889999999999999999999999999


Q ss_pred             HhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCH---hhHHHH------------HHHHHhcCCHHHHHH
Q 023133           95 VQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDL---ITYNIV------------LDILGRVGRVNDMLN  159 (287)
Q Consensus        95 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~  159 (287)
                      .+.+ +.+..++..+..+|.+.|++++|...|+++.+.. +.+.   ..+..+            ...+...|++++|..
T Consensus        87 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  164 (450)
T 2y4t_A           87 IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIA  164 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9987 5678899999999999999999999999998764 2233   455555            344888999999999


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 023133          160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQI  239 (287)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  239 (287)
                      .|+.+.+... .+..++..+..+|.+.|++++|...++++.+.. +.+..++..+..+|...|++++|...|+++.+.. 
T Consensus       165 ~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  241 (450)
T 2y4t_A          165 FLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-  241 (450)
T ss_dssp             HHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            9999887643 367788888888888888888888888887653 4467788888888888888888888888887642 


Q ss_pred             CcchHhHHHH------------HHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          240 RPSIYVYRSL------------IDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       240 ~~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +.+...+..+            ...+...|++++|..+|+++....|+.+
T Consensus       242 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~  291 (450)
T 2y4t_A          242 QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIA  291 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSH
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcch
Confidence            2233334333            6777788888888888888877777643

>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=99.94  E-value=3.1e-23  Score=163.68  Aligned_cols=273  Identities=10%  Similarity=-0.003  Sum_probs=236.8

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +..+...+...|++++|+++|+++.+.++.....+..++.++...|++++|...++++.+.. +.+...+..+...+...
T Consensus        25 ~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  103 (330)
T 3hym_B           25 VVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMV  103 (330)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHh
Confidence            34577888899999999999999999887666788888999999999999999999999863 44677888899999999


Q ss_pred             C-ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           82 D-DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        82 ~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      | ++++|.+.++++.+.. +.+...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...
T Consensus       104 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  181 (330)
T 3hym_B          104 GHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERF  181 (330)
T ss_dssp             CSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHH
Confidence            9 9999999999999876 5667889999999999999999999999998764 33456777899999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC--------CcCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG--------IKPDLLTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      +++..+.... +...+..+...+...|++++|...++++.+..        .+.+..++..+..++...|++++|...++
T Consensus       182 ~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  260 (330)
T 3hym_B          182 FSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHR  260 (330)
T ss_dssp             HHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999887533 67889999999999999999999999987531        13345788999999999999999999999


Q ss_pred             HHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          233 DMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       233 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      +..+.. +.+...+..+...+...|++++|.+.|+++.+..|+.+..
T Consensus       261 ~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  306 (330)
T 3hym_B          261 QALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFS  306 (330)
T ss_dssp             HHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHH
T ss_pred             HHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHH
Confidence            998763 4467889999999999999999999999999998876543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.92  E-value=2.2e-21  Score=154.68  Aligned_cols=270  Identities=11%  Similarity=0.067  Sum_probs=160.7

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC----CHHHHHHH-----
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTL----SSDCYTNF-----   74 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l-----   74 (287)
                      .+...+...|++++|...|+++.+.++....++..+...+...|++++|...+++..+.  .|    +...+..+     
T Consensus        42 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~  119 (359)
T 3ieg_A           42 RRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADE  119 (359)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHH
Confidence            34444445555555555555554444333344555555555555555555555555432  22    22222222     


Q ss_pred             -------HHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           75 -------ARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        75 -------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                             ...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus       120 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  197 (359)
T 3ieg_A          120 MQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTL  197 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence                   344455555555555555555543 3455566666666666666666666666666553 3355566666667


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhHHH------------HHHHHHHhcCchHHHHHHHHHHhhCCCcCCH----HHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVPDFISYN------------TLLNNLRKIRRLDLCLIYFREMGESGIKPDL----LTY  211 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  211 (287)
                      +...|++++|...|+...+.... +...+.            .+...+.+.|++++|...++++.+.. +.+.    ..+
T Consensus       198 ~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  275 (359)
T 3ieg_A          198 YYQLGDHELSLSEVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE-PSVAEYTVRSK  275 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSSHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHH
Confidence            77777777777777776654322 222222            22445667777777777777776542 1122    224


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          212 TALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       212 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      ..+..++...|++++|...+++..+.. +.+..++..+...+...|++++|.+.|+++.+..|+.+...
T Consensus       276 ~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~  343 (359)
T 3ieg_A          276 ERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIR  343 (359)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHH
Confidence            456677888888888888888887652 33667788888888888888888888888888887765543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=7e-21  Score=151.80  Aligned_cols=269  Identities=12%  Similarity=0.070  Sum_probs=226.5

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +..+...+...|++++|+..|+++.+.++..+.++..+..++...|++++|+..++++.+.. +.+...+..+..++...
T Consensus         6 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   84 (359)
T 3ieg_A            6 HLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQ   84 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHc
Confidence            45678889999999999999999999887666899999999999999999999999998763 33678888999999999


Q ss_pred             CChHHHHHHHHHHHhcCCC---CcHHHHHHH------------HHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASP---ESIIVVNRI------------IFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLD  146 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  146 (287)
                      |++++|...++++.+.. +   .+...+..+            ...+...|++++|...++++.+.. +.+...+..+..
T Consensus        85 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  162 (359)
T 3ieg_A           85 GKLDEAEDDFKKVLKSN-PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAE  162 (359)
T ss_dssp             TCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhcC-CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHH
Confidence            99999999999999875 3   455555555            578999999999999999998764 456778999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHH------------HH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYT------------AL  214 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------~l  214 (287)
                      ++...|++++|...++.+.+... .+..++..+...+...|++++|...+++..+.. +.+...+.            .+
T Consensus       163 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~  240 (359)
T 3ieg_A          163 CFIKEGEPRKAISDLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIES  240 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999988753 377889999999999999999999999998763 33333333            23


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCcc-h----HhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          215 IDSFGRTGNIEESLRLFNDMKQQQIRPS-I----YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       215 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      ...+.+.|++++|...++++.+..  |+ .    ..+..+..++...|++++|.+.++++.+..|+.+
T Consensus       241 a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~  306 (359)
T 3ieg_A          241 AEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNV  306 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccH
Confidence            667899999999999999998753  33 2    2355677889999999999999999999887654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.91  E-value=2.2e-22  Score=161.33  Aligned_cols=263  Identities=13%  Similarity=0.030  Sum_probs=201.7

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..+...+.+.|++++|+..|+++...++....+|..+..++.+.|++++|+..|++..+.. +.+..++..+..++...
T Consensus        68 ~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  146 (365)
T 4eqf_A           68 AFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNT  146 (365)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHcc
Confidence            45677788889999999999999888776555888899999999999999999999988763 34577888888889999


Q ss_pred             CChHHHHHHHHHHHhcCCCCc----------HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC--CHhhHHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPES----------IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP--DLITYNIVLDILG  149 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~  149 (287)
                      |++++|...++++.+.. +.+          ...+..+...+.+.|++++|...|+++.+.. +.  +..++..+...+.
T Consensus       147 g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~~  224 (365)
T 4eqf_A          147 SHQQDACEALKNWIKQN-PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLFH  224 (365)
T ss_dssp             TCHHHHHHHHHHHHHHC-HHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHHH
Confidence            99999999999888764 121          2233445778888999999999998887763 22  5778888888999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  229 (287)
                      ..|++++|...|+++.+.... +..+|..+..+|...|++++|...++++.+.. +.+..++..+..+|...|++++|..
T Consensus       225 ~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~  302 (365)
T 4eqf_A          225 LSGEFNRAIDAFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVS  302 (365)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999998876433 67788889999999999999999999888763 3457788888899999999999999


Q ss_pred             HHHHHHhCCC---C--------cchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          230 LFNDMKQQQI---R--------PSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       230 ~~~~~~~~~~---~--------~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .|+++.+...   .        .+...|..+..++...|+.+.+.++.++-
T Consensus       303 ~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          303 NFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            9998875310   0        13567888888888899988888777653

>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=99.91  E-value=1.4e-22  Score=159.70  Aligned_cols=268  Identities=10%  Similarity=0.014  Sum_probs=223.6

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..+...+...|++++|..+|+++.+..+....++..+..++...|++++|...++++.+.. +.+...+..+...+...
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  102 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNE  102 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHc
Confidence            34567888999999999999999998876555889999999999999999999999998863 44678888899999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHH--------------HH-HHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRI--------------IF-AFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLD  146 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  146 (287)
                      |++++|.+.++++.+.. +.+...+..+              .. .+...|++++|...++++.+.. +.+...+..+..
T Consensus       103 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  180 (327)
T 3cv0_A          103 HNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGV  180 (327)
T ss_dssp             TCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            99999999999998875 3333333333              33 3778899999999999988764 446788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      .+...|++++|...++++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+..++...|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~  258 (327)
T 3cv0_A          181 LYNLSNNYDSAAANLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDL  258 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHH
Confidence            99999999999999999988753 367889999999999999999999999998764 4567889999999999999999


Q ss_pred             HHHHHHHHHhCCCCc-----------chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          227 SLRLFNDMKQQQIRP-----------SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       227 a~~~~~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      |.+.++++.+.....           +...+..+..++...|++++|..++++.....|
T Consensus       259 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~  317 (327)
T 3cv0_A          259 AAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPFA  317 (327)
T ss_dssp             HHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHHH
T ss_pred             HHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcc
Confidence            999999998652111           477889999999999999999999987755444

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.91  E-value=1.2e-21  Score=152.04  Aligned_cols=265  Identities=11%  Similarity=0.102  Sum_probs=218.9

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      |+.....|+++.|+..++.....++.+. .....+.++|...|+++.|+..++.    ..+|+..++..+...+...++.
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~   81 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRR   81 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTH
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcH
Confidence            4566789999999999988766554443 4667788999999999999987654    2456677888888999999999


Q ss_pred             HHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIAS-PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                      ++|.+.++++...+. |.+...+..+...+...|++++|++.+++      +.+...+..+...+.+.|++++|...|+.
T Consensus        82 ~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~  155 (291)
T 3mkr_A           82 DAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKK  155 (291)
T ss_dssp             HHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999988763 55677788888999999999999999987      46778899999999999999999999999


Q ss_pred             HHHcCCCCChhHH---HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          164 MKEAGVVPDFISY---NTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       164 ~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      +.+..  |+....   ..++..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|...|++..+.. +
T Consensus       156 ~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p  231 (291)
T 3mkr_A          156 MQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-S  231 (291)
T ss_dssp             HHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-C
Confidence            98874  453211   123344445699999999999999873 6688899999999999999999999999998763 4


Q ss_pred             cchHhHHHHHHHHHhcCChHH-HHHHHHHHhhcCCCCCChhhHhh
Q 023133          241 PSIYVYRSLIDNLKKMGKVDL-AMTIFEEMNSSLSDLAGPKDFKR  284 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~~~  284 (287)
                      -+..++..++..+...|+.++ +.++++++.+..|+.+....+..
T Consensus       232 ~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d~~~  276 (291)
T 3mkr_A          232 GHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKEYRA  276 (291)
T ss_dssp             TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHHHHH
Confidence            467789999999999999976 67999999999999987665543

>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=99.91  E-value=1.2e-21  Score=157.18  Aligned_cols=262  Identities=14%  Similarity=0.068  Sum_probs=153.3

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      ..+...+.+.|++++|...|+++.+.++....++..+..++...|++++|+..++++.+.. +.+..++..+..++...|
T Consensus        68 ~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g  146 (368)
T 1fch_A           68 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  146 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC
Confidence            3455566666666666666666666554433566666666666666666666666666543 334556666666666666


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHH---------------HHHHHHhcCCHHHHHHHHHHHhcCCCCC-CHhhHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNR---------------IIFAFAKSRQIEKALLIFDHIKGLKCKP-DLITYNIVLD  146 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~  146 (287)
                      ++++|...++++.+... .+...+..               .+..+...|++++|...|+++.+..... +..++..+..
T Consensus       147 ~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~  225 (368)
T 1fch_A          147 LQRQACEILRDWLRYTP-AYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  225 (368)
T ss_dssp             CHHHHHHHHHHHHHTST-TTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCc-CcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHH
Confidence            66666666666665542 22222211               1222236666666666666665542110 3556666666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      .+...|++++|...|+++.+... .+..++..+...+...|++++|...++++.+.. +.+...+..+..+|...|++++
T Consensus       226 ~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  303 (368)
T 1fch_A          226 LFNLSGEYDKAVDCFTAALSVRP-NDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHRE  303 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHH
Confidence            66666666666666666655432 245566666666666666666666666666542 3345566666666666666666


Q ss_pred             HHHHHHHHHhCCCC----------cchHhHHHHHHHHHhcCChHHHHHHHHH
Q 023133          227 SLRLFNDMKQQQIR----------PSIYVYRSLIDNLKKMGKVDLAMTIFEE  268 (287)
Q Consensus       227 a~~~~~~~~~~~~~----------~~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (287)
                      |...|+++.+....          ....+|..+..++...|++++|..++++
T Consensus       304 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  355 (368)
T 1fch_A          304 AVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADAR  355 (368)
T ss_dssp             HHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTT
T ss_pred             HHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHH
Confidence            66666666543100          0145666666666666666666666553

>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=99.90  E-value=6.2e-21  Score=152.93  Aligned_cols=264  Identities=9%  Similarity=-0.022  Sum_probs=211.1

Q ss_pred             HHHhcCChhHHHH-HHHHHhhcCCCC---c-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            8 KLCKAGNVSAAVR-LLQSLRDKNIFL---P-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         8 ~~~~~g~~~~a~~-~~~~~~~~~~~~---~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      .+...|++++|.+ .|++.....+..   . ..+..+...+.+.|++++|+..++++.+.. +.+...+..+..++...|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3445678888888 888655444332   2 578899999999999999999999999864 456788899999999999


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHH---------------HHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNI---------------VLDI  147 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---------------l~~~  147 (287)
                      ++++|...++++.+.. +.+..++..+...|...|++++|...++++.+.. +.+...+..               .+..
T Consensus       113 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (368)
T 1fch_A          113 QELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEGAGGAGLGPSKRILGS  190 (368)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---------------CTTHH
T ss_pred             CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHhhhhcccHHHHHHHH
Confidence            9999999999999886 5688899999999999999999999999998764 222222221               2344


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      +...|++++|...|+++.+..... +..++..+...+...|++++|...++++.+.. +.+..++..+..++...|++++
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHH
Confidence            448999999999999998764332 47889999999999999999999999998764 4567899999999999999999


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      |...|+++.+.. +.+...+..+..++...|++++|...|+++....|+.
T Consensus       270 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  318 (368)
T 1fch_A          270 AVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKS  318 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            999999998753 4467889999999999999999999999998877766

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=2.4e-21  Score=155.31  Aligned_cols=239  Identities=8%  Similarity=0.023  Sum_probs=201.0

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|...|+++.+.. +.+..++..+...|
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  143 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSY  143 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            569999999999999999999999999864 4578889999999999999999999999999886 56788999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCC-Hhh----------HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CChhHHHHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPD-LIT----------YNIVLDILGRVGRVNDMLNEFASMKEAGVV-PDFISYNTLLN  181 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~----------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~  181 (287)
                      ...|++++|...|+++.+..  |+ ...          +..+...+...|++++|...|+++.+.... ++..++..+..
T Consensus       144 ~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          144 TNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            99999999999999998753  33 222          334578899999999999999999887432 25788999999


Q ss_pred             HHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHH
Q 023133          182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDL  261 (287)
Q Consensus       182 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  261 (287)
                      .+...|++++|...++++.+.. +.+..++..+..+|...|++++|...|+++.+.. +.+..++..+..++...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999998764 4568899999999999999999999999999753 3457889999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCC
Q 023133          262 AMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       262 a~~~~~~~~~~~~~~~~  278 (287)
                      |...|+++....|+..+
T Consensus       300 A~~~~~~al~~~~~~~~  316 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRN  316 (365)
T ss_dssp             HHHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHhCcccCC
Confidence            99999999887776443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=3.8e-20  Score=154.73  Aligned_cols=268  Identities=11%  Similarity=-0.029  Sum_probs=152.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD   82 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~   82 (287)
                      ..+...+.+.|++++|+..|+++...++ .+.+|..+..++.+.|++++|+..++++.+.+ +.+...+..+..++...|
T Consensus        10 ~~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g   87 (514)
T 2gw1_A           10 KDKGNQFFRNKKYDDAIKYYNWALELKE-DPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLG   87 (514)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCc-cHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHh
Confidence            3455667777777777777777777663 12677777777777777777777777777653 334566677777777777


Q ss_pred             ChHHHHHHHHHHHhcCCCC-------------------------------------------------------------
Q 023133           83 DCTQLLIFIEEVVQIASPE-------------------------------------------------------------  101 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~-------------------------------------------------------------  101 (287)
                      ++++|...|+++.+.+...                                                             
T Consensus        88 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (514)
T 2gw1_A           88 KFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASF  167 (514)
T ss_dssp             CHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHH
Confidence            7777777777665544210                                                             


Q ss_pred             -----------------cHHHHHHHHHHHHh---cCCHHHHHHHHHHHhc-----CCC--------CCCHhhHHHHHHHH
Q 023133          102 -----------------SIIVVNRIIFAFAK---SRQIEKALLIFDHIKG-----LKC--------KPDLITYNIVLDIL  148 (287)
Q Consensus       102 -----------------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~~  148 (287)
                                       +...+......+..   .|++++|...|+++.+     ..-        +.+..++..+...+
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (514)
T 2gw1_A          168 FGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFK  247 (514)
T ss_dssp             HTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHH
Confidence                             12222222333332   5666666666666654     210        11233555566666


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          149 GRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      ...|++++|...|+.+.+....  ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       248 ~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~  324 (514)
T 2gw1_A          248 FLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAG  324 (514)
T ss_dssp             HHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHH
Confidence            6666666666666666554322  5555555555556666666666665555442 223445555555555555555555


Q ss_pred             HHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          229 RLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      ..++++.+.. +.+...+..+...+...|++++|..+++++.+..|+.
T Consensus       325 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~  371 (514)
T 2gw1_A          325 KDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEA  371 (514)
T ss_dssp             HHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccC
Confidence            5555555432 2233444555555555555555555555555544443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=1.4e-20  Score=157.45  Aligned_cols=272  Identities=11%  Similarity=0.020  Sum_probs=227.3

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC---------------
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTL---------------   66 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------------   66 (287)
                      |..+...+.+.|++++|+..|+++.+.++....++..+..++.+.|++++|...|+++...+...               
T Consensus        42 ~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (514)
T 2gw1_A           42 YSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQ  121 (514)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHH
Confidence            56788999999999999999999999886555899999999999999999999999987654210               


Q ss_pred             ---------------------------------------------------------------CHHHHHHHHHHHh---c
Q 023133           67 ---------------------------------------------------------------SSDCYTNFARAFI---M   80 (287)
Q Consensus        67 ---------------------------------------------------------------~~~~~~~l~~~~~---~   80 (287)
                                                                                     +...+......+.   +
T Consensus       122 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  201 (514)
T 2gw1_A          122 AMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRS  201 (514)
T ss_dssp             HHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhh
Confidence                                                                           0222233333333   3


Q ss_pred             cCChHHHHHHHHHHHh-----c--CC------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQ-----I--AS------PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~-----~--~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      .|++++|...++++.+     .  ..      +.+..++..+...+...|++++|...|+++.+..  |+...+..+..+
T Consensus       202 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~  279 (514)
T 2gw1_A          202 PESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALI  279 (514)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHH
Confidence            7999999999999987     3  11      3346788889999999999999999999998764  447788999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEES  227 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  227 (287)
                      +...|++++|...++.+.+.... +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|
T Consensus       280 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  357 (514)
T 2gw1_A          280 MADRNDSTEYYNYFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDC  357 (514)
T ss_dssp             HHTSSCCTTGGGHHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999886533 67789999999999999999999999998864 44667888999999999999999


Q ss_pred             HHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          228 LRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      ...++++.+.. +.+...+..+...+...|++++|...++++....|+.+.
T Consensus       358 ~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~  407 (514)
T 2gw1_A          358 ETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDG  407 (514)
T ss_dssp             HHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSS
T ss_pred             HHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccch
Confidence            99999998752 345778899999999999999999999999888777654

>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=99.88  E-value=1.1e-19  Score=143.36  Aligned_cols=253  Identities=15%  Similarity=0.070  Sum_probs=215.0

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC-ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN-DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +..++..+...|++++|...++++.+.++..+.++..+...+...| ++++|...+++..+.. +.+...+..+...+..
T Consensus        59 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  137 (330)
T 3hym_B           59 LPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAV  137 (330)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHH
Confidence            3456788899999999999999999988766689999999999999 9999999999998764 3356788899999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|++++|...++++.+.. +.+...+..+...|...|++++|...+++..+.. +.+...+..+...+...|++++|...
T Consensus       138 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  215 (330)
T 3hym_B          138 ESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKW  215 (330)
T ss_dssp             HTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHH
Confidence            999999999999999886 4566778889999999999999999999998875 45677899999999999999999999


Q ss_pred             HHHHHHcC--------CCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          161 FASMKEAG--------VVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       161 ~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      +++..+..        ...+..++..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.++
T Consensus       216 ~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  294 (330)
T 3hym_B          216 FLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFH  294 (330)
T ss_dssp             HHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHH
Confidence            99987642        12345788999999999999999999999998764 4467789999999999999999999999


Q ss_pred             HHHhCCCCcchHhHHHHHHHH-HhcCCh
Q 023133          233 DMKQQQIRPSIYVYRSLIDNL-KKMGKV  259 (287)
Q Consensus       233 ~~~~~~~~~~~~~~~~li~~~-~~~g~~  259 (287)
                      +..+.. +.+...+..+..++ ...|+.
T Consensus       295 ~al~~~-p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          295 TALGLR-RDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             TTTTTC-SCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHccC-CCchHHHHHHHHHHHHHhCch
Confidence            998753 33566777777777 455554

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.88  E-value=6.8e-20  Score=154.11  Aligned_cols=267  Identities=13%  Similarity=0.076  Sum_probs=169.5

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      |..+...+.+.|++++|++.|+++...++..+.++..+..++.+.|++++|++.+++..+.+ +.+..++..+..++...
T Consensus        28 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  106 (537)
T 3fp2_A           28 LKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESL  106 (537)
T ss_dssp             HHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHc
Confidence            45567788899999999999999988876655888999999999999999999999988764 44677788888888888


Q ss_pred             CChHHHHHHHHHH-------------------------------------------------------------------
Q 023133           82 DDCTQLLIFIEEV-------------------------------------------------------------------   94 (287)
Q Consensus        82 ~~~~~a~~~~~~~-------------------------------------------------------------------   94 (287)
                      |++++|...|+.+                                                                   
T Consensus       107 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (537)
T 3fp2_A          107 GNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTS  186 (537)
T ss_dssp             TCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCC
T ss_pred             CCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhc
Confidence            8888888877432                                                                   


Q ss_pred             ------------------------------------------HhcCCCCc-------HHHHHHHHHHHHhcCCHHHHHHH
Q 023133           95 ------------------------------------------VQIASPES-------IIVVNRIIFAFAKSRQIEKALLI  125 (287)
Q Consensus        95 ------------------------------------------~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~  125 (287)
                                                                .+.. +.+       ..++..+...+...|++++|...
T Consensus       187 ~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~  265 (537)
T 3fp2_A          187 SNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN-TVDDPLRENAALALCYTGIFHFLKNNLLDAQVL  265 (537)
T ss_dssp             CSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC-CCcchhhHHHHHHHHHHHHHHHhcccHHHHHHH
Confidence                                                      1111 111       11233444455555566666666


Q ss_pred             HHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc
Q 023133          126 FDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIK  205 (287)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  205 (287)
                      |+++.+.  .|+...+..+...+...|++++|...++.+.+.... +..++..+...+...|++++|...++++.+.. +
T Consensus       266 ~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~  341 (537)
T 3fp2_A          266 LQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-P  341 (537)
T ss_dssp             HHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-C
Confidence            6655544  344555555556666666666666666665554322 44556666666666666666666666665542 2


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          206 PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       206 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+...+..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.|+++....|+
T Consensus       342 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  410 (537)
T 3fp2_A          342 ENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEV  410 (537)
T ss_dssp             TCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCc
Confidence            234455566666666666666666666665542 233455566666666666666666666666554443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=2.2e-22  Score=172.67  Aligned_cols=152  Identities=18%  Similarity=0.214  Sum_probs=123.7

Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc---CCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHH
Q 023133          101 ESIIVVNRIIFAFAKSRQIEKALLIFDHIKG---LKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYN  177 (287)
Q Consensus       101 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  177 (287)
                      .-..+||++|++|++.|++++|.++|++|.+   .|+.||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            3456899999999999999999999988753   4788999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCch-HHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc------hHhHHHHH
Q 023133          178 TLLNNLRKIRRL-DLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS------IYVYRSLI  250 (287)
Q Consensus       178 ~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~li  250 (287)
                      ++|.++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    .+++.++++ ..++.|+      ..+...|.
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHH
Confidence            999999999985 78899999999999999999999998766654    344444444 2244443      44555566


Q ss_pred             HHHHhcC
Q 023133          251 DNLKKMG  257 (287)
Q Consensus       251 ~~~~~~g  257 (287)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            6666554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.86  E-value=3e-21  Score=165.76  Aligned_cols=119  Identities=13%  Similarity=0.177  Sum_probs=110.9

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHH---HcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHH
Q 023133          137 DLITYNIVLDILGRVGRVNDMLNEFASMK---EAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTA  213 (287)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  213 (287)
                      -..|||+||.+|++.|++++|.++|.+|.   ..|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34589999999999999999999998875   458999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          214 LIDSFGRTGN-IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       214 l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      ||+++++.|+ .++|.++|++|.+.|+.||..+|++++.+..+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            9999999998 47899999999999999999999999865544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.86  E-value=2.3e-19  Score=136.45  Aligned_cols=226  Identities=10%  Similarity=0.018  Sum_probs=146.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCC--c----HHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPE--S----IIVVN  107 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~----~~~~~  107 (287)
                      ..+..+...+...|++++|+..+++..+..  .+...+..+..++...|++++|...++++.+.....  +    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            355666666666677777777776666655  556666666666666777777777766665543111  1    45666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC
Q 023133          108 RIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR  187 (287)
Q Consensus       108 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  187 (287)
                      .+...|...|++++|...|++..+.  .|+.       ..+...|++++|...++.+...... +...+..+...+...|
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVNPE-KAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCCHH-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcCcc-hHHHHHHHHHHHHHhc
Confidence            6777777777777777777766654  2332       3345556677777777776664321 4456666667777777


Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  267 (287)
                      ++++|...++++.+.. +.+...+..+..+|...|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.|+
T Consensus       154 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  231 (258)
T 3uq3_A          154 DWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLD  231 (258)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            7777777777776543 3356667777777777777777777777776642 3345667777777777777777777777


Q ss_pred             HHhhcC
Q 023133          268 EMNSSL  273 (287)
Q Consensus       268 ~~~~~~  273 (287)
                      ++.+..
T Consensus       232 ~a~~~~  237 (258)
T 3uq3_A          232 AARTKD  237 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHhC
Confidence            776665

>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=99.86  E-value=7.3e-19  Score=138.39  Aligned_cols=236  Identities=10%  Similarity=0.017  Sum_probs=201.1

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|..+++++.+.. +.+...+..+..++...|++++|.+.++++.+.. +.+..++..+...|
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            578888999999999999999999998864 4467788889999999999999999999999886 56788999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHH--------------HH-HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIV--------------LD-ILGRVGRVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                      ...|++++|.+.++++.+.. +.+...+..+              .. .+...|++++|...++++.+.... +...+..
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  177 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPN-DAQLHAS  177 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHSTT-CHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCC-CHHHHHH
Confidence            99999999999999998763 2233333333              22 377889999999999999887543 7788999


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCC
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGK  258 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  258 (287)
                      +...+...|++++|...++++.+.. +.+..++..+...+...|++++|.+.++++.+.. +.+...+..+...+...|+
T Consensus       178 la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          178 LGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcc
Confidence            9999999999999999999998764 4567889999999999999999999999998753 4467889999999999999


Q ss_pred             hHHHHHHHHHHhhcCCC
Q 023133          259 VDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       259 ~~~a~~~~~~~~~~~~~  275 (287)
                      +++|.+.++++....|+
T Consensus       256 ~~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc
Confidence            99999999999888776

>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=1.7e-18  Score=145.59  Aligned_cols=261  Identities=13%  Similarity=0.090  Sum_probs=217.9

Q ss_pred             CChhHHHHHHHHHhhcCCCCch-------hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133           13 GNVSAAVRLLQSLRDKNIFLPN-------AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      |++++|..+|+++.+..+..+.       ++..+...+...|++++|...+++....  .|+...+..+...+...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHH
Confidence            5899999999999988766542       4677778888999999999999999986  456888889999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      +|...++++.+.. +.+..++..+...+...|++++|...|+++.+.. +.+...+..+..++...|++++|...++++.
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999999999886 5678899999999999999999999999998764 3456788999999999999999999999998


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC-----CcCCHHHHHHHHHHHHhc----------CCHHHHHHH
Q 023133          166 EAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG-----IKPDLLTYTALIDSFGRT----------GNIEESLRL  230 (287)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~----------g~~~~a~~~  230 (287)
                      +.... +...+..+...+...|++++|...++++.+..     .......+..+...+...          |++++|...
T Consensus       372 ~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~  450 (537)
T 3fp2_A          372 LKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKL  450 (537)
T ss_dssp             HHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHH
T ss_pred             HhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHH
Confidence            87533 56788999999999999999999999987542     111223344556677777          999999999


Q ss_pred             HHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          231 FNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      |+++.+.. +.+...+..+...+...|++++|.+.|+++.+..|..+..
T Consensus       451 ~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  498 (537)
T 3fp2_A          451 LTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEK  498 (537)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHH
Confidence            99999763 4467889999999999999999999999999998876553

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.84  E-value=5e-18  Score=129.06  Aligned_cols=223  Identities=12%  Similarity=0.067  Sum_probs=192.3

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC--CC----HHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRT--LS----SDCYTNFA   75 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~l~   75 (287)
                      |..+...+...|++++|+..|++..+.+ ..+.++..+..++...|++++|+..+++..+....  ++    ...+..+.
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~   86 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH-KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIG   86 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHH
Confidence            5678889999999999999999998888 44489999999999999999999999999875422  22    57888899


Q ss_pred             HHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH
Q 023133           76 RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN  155 (287)
Q Consensus        76 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  155 (287)
                      .++...|++++|...++++.+..  |+.       ..+.+.|++++|...++++.... +.+...+..+...+...|+++
T Consensus        87 ~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  156 (258)
T 3uq3_A           87 NAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWP  156 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHH
Confidence            99999999999999999999875  332       34667789999999999998763 335567888999999999999


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|...+++..+.... +..++..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++..
T Consensus       157 ~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  234 (258)
T 3uq3_A          157 NAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAAR  234 (258)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            999999999887543 67889999999999999999999999998764 4567889999999999999999999999988


Q ss_pred             hC
Q 023133          236 QQ  237 (287)
Q Consensus       236 ~~  237 (287)
                      +.
T Consensus       235 ~~  236 (258)
T 3uq3_A          235 TK  236 (258)
T ss_dssp             HH
T ss_pred             Hh
Confidence            64

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.83  E-value=1.7e-18  Score=128.48  Aligned_cols=196  Identities=11%  Similarity=0.006  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      ...+..+...+.+.|++++|...+++.++.. |.+...+..+...+.+.|++++|...|++..+.. +.+...+..+..+
T Consensus         5 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~   82 (217)
T 2pl2_A            5 EQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEA   82 (217)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            3344444444444444444444444444443 3344444444444444455555544444444332 2233344444444


Q ss_pred             HHhc-----------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHH
Q 023133          148 LGRV-----------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALID  216 (287)
Q Consensus       148 ~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  216 (287)
                      +...           |++++|...|++..+.... +...+..+...+...|++++|...|++..+..  .+...+..+..
T Consensus        83 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~  159 (217)
T 2pl2_A           83 YVALYRQAEDRERGKGYLEQALSVLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAE  159 (217)
T ss_dssp             HHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             HHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHH
Confidence            4444           5666666666655554322 34455555555666666666666666655544  45555555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          217 SFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +|...|++++|...|++..+.. +.+...+..+...+...|++++|...|++.
T Consensus       160 ~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666655532 223445555555566666666666665554

>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=99.83  E-value=8.5e-18  Score=127.57  Aligned_cols=212  Identities=10%  Similarity=0.067  Sum_probs=157.1

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      ...+..+...+...|++++|...++++.+.. +.+..++..+...|...|++++|.+.++++.+.. +.+...+..+...
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            3455666677777788888888887777765 4566777777778888888888888887776653 3356677777778


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      +...|++++|.++++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++
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            888888888888888877632333 45567777778888888888888888877653 3456777888888888888888


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      |...++++.+.. +.+...+..+...+...|++++|.++++++....|+.+....+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  249 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQEFQ  249 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence            888888887652 34566777778888888888888888888888888776655544

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=9.4e-18  Score=130.03  Aligned_cols=243  Identities=11%  Similarity=0.047  Sum_probs=192.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-CHHHHHHHHHHHhcc
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL-SSDCYTNFARAFIMT   81 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~   81 (287)
                      .+.++|...|+++.|+..++.   .+ .|. .++..+...+...++.+.|++.++++...+..| +...+..+...+...
T Consensus        39 ~l~r~yi~~g~~~~al~~~~~---~~-~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~  114 (291)
T 3mkr_A           39 FLYRAYLAQRKYGVVLDEIKP---SS-APELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYD  114 (291)
T ss_dssp             HHHHHHHHTTCHHHHHHHSCT---TS-CHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHhcc---cC-ChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHC
Confidence            367899999999999986644   22 223 788889999999999999999999998876555 455667777899999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhH---HHHHHHHHhcCCHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITY---NIVLDILGRVGRVNDML  158 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~a~  158 (287)
                      |++++|++.+++      +.+...+..++..|.+.|++++|.+.|+++.+..  |+....   ..++..+...|++++|.
T Consensus       115 g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~  186 (291)
T 3mkr_A          115 QNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAY  186 (291)
T ss_dssp             TCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHH
T ss_pred             CCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHH
Confidence            999999999987      5778899999999999999999999999998763  554322   22334445669999999


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHhC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE-SLRLFNDMKQQ  237 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~  237 (287)
                      .+|+++.+.. +.+...++.+..++.+.|++++|...+++..+.. +-+..++..++..+...|+.++ +.++++++.+.
T Consensus       187 ~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          187 YIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            9999998874 4578899999999999999999999999998764 4577889999999999999876 67899998875


Q ss_pred             CCCcchHhHHHHHHHHHhcCChHHHHHH
Q 023133          238 QIRPSIYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       238 ~~~~~~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                        .|+...   +.+...+.+.++++..-
T Consensus       265 --~P~~~~---~~d~~~~~~~fd~~~~~  287 (291)
T 3mkr_A          265 --HRSHPF---IKEYRAKENDFDRLVLQ  287 (291)
T ss_dssp             --CTTCHH---HHHHHHHHHHHHHHHHH
T ss_pred             --CCCChH---HHHHHHHHHHHHHHHHH
Confidence              454433   22334444555555443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.82  E-value=2.3e-17  Score=122.75  Aligned_cols=212  Identities=12%  Similarity=0.040  Sum_probs=124.4

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      ..+..+...+...|++++|.+.++++.+.. +.+..++..+...|...|++++|.+.++++.+.. +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            344445555555566666666665555543 3345555556666666666666666666555432 23444555566666


Q ss_pred             Hhc-CCHHHHHHHHHHHHHcCCCCC-hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          149 GRV-GRVNDMLNEFASMKEAGVVPD-FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       149 ~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      ... |++++|...++.+.+.+..|+ ...+..+...+...|++++|...++++.+.. +.+...+..+..++...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHH
Confidence            666 666666666666655222222 3455566666666666666666666665542 2345566666677777777777


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      |...++++.+.....+...+..+...+...|+.++|..+++.+....|+.+....++
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            777777766542113455556666666677777777777777766666665554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.82  E-value=3.9e-17  Score=125.29  Aligned_cols=229  Identities=12%  Similarity=0.074  Sum_probs=118.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC--HHHHHHHHHHHhccC
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS--SDCYTNFARAFIMTD   82 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~   82 (287)
                      ....+...|++++|+..|++..+.++....++..+..++...|++++|+..+++..+.+..|+  ...+..+...+...|
T Consensus         9 ~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~   88 (272)
T 3u4t_A            9 YADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG   88 (272)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc
Confidence            445566666666666666666665544445666666666666666666666666665221111  223555566666666


Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHH
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      ++++|...+++..+.. +.+..++..+...|...|++++|...|++..+.. +.+...+..+...+...+++++|...|+
T Consensus        89 ~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           89 QDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             CHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666554 3444556666666666666666666666655542 2233444444422233335666666665


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCc---hHHHHHHHHHHhhCC-CcCC------HHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRR---LDLCLIYFREMGESG-IKPD------LLTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~-~~~~------~~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      +..+.... +...+..+...+...|+   +++|...+++..+.. -.|+      ...|..+...|...|++++|.+.++
T Consensus       167 ~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  245 (272)
T 3u4t_A          167 KVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWK  245 (272)
T ss_dssp             HHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55554321 23444444555554454   444555554443320 0111      1234444444444444444444444


Q ss_pred             HHHh
Q 023133          233 DMKQ  236 (287)
Q Consensus       233 ~~~~  236 (287)
                      +..+
T Consensus       246 ~al~  249 (272)
T 3u4t_A          246 NILA  249 (272)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.82  E-value=7.3e-18  Score=129.50  Aligned_cols=247  Identities=6%  Similarity=-0.077  Sum_probs=193.9

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCC--c--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChH
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFL--P--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCT   85 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~--~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   85 (287)
                      ...|++++|+..|+++.+.....  .  .++..+...+...|++++|+..|++..+.. +.+...+..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            35688999999999998874322  2  688899999999999999999999998864 446788999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      +|...++++.+.. +.+..++..+...|.+.|++++|...|+++.+.  .|+.......+..+...|++++|...+....
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999999876 567888999999999999999999999999875  4555555555566677899999999998887


Q ss_pred             HcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc
Q 023133          166 EAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKP---DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS  242 (287)
Q Consensus       166 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  242 (287)
                      .... ++...+ .++..+...++.++|...+....+.....   +...+..+..+|...|++++|...|++..+.  .|+
T Consensus       172 ~~~~-~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~  247 (275)
T 1xnf_A          172 EKSD-KEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVH  247 (275)
T ss_dssp             HHSC-CCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCT
T ss_pred             hcCC-cchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--Cch
Confidence            6532 344444 46777788888899999999887653111   1567888999999999999999999999975  343


Q ss_pred             hHhHHHHHHHHHhcCChHHHHHHH
Q 023133          243 IYVYRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       243 ~~~~~~li~~~~~~g~~~~a~~~~  266 (287)
                      .  +.....++...|++++|.+.+
T Consensus       248 ~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          248 N--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             T--CHHHHHHHHHHHHHHHC----
T ss_pred             h--HHHHHHHHHHHHHHHhhHHHH
Confidence            2  233355677888898888776

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.82  E-value=1.5e-17  Score=127.61  Aligned_cols=245  Identities=9%  Similarity=-0.083  Sum_probs=198.2

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCC--cHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPE--SIIVVNRIIF  111 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  111 (287)
                      ..+......+...|++++|+..+++..+.. +.+...+..+..++...|++++|...++++.+....+  ....|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            356778889999999999999999998763 3345588889999999999999999999998843222  2345889999


Q ss_pred             HHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH
Q 023133          112 AFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL  191 (287)
Q Consensus       112 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  191 (287)
                      .+...|++++|...|++..+.. +.+..++..+...|...|++++|...|++..+... .+...+..+...+...+++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTT-TDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCC-CcHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999998764 34567899999999999999999999999987643 256677777734445569999


Q ss_pred             HHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCC-CCcc------hHhHHHHHHHHHhcCChHH
Q 023133          192 CLIYFREMGESGIKPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQ-IRPS------IYVYRSLIDNLKKMGKVDL  261 (287)
Q Consensus       192 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~-~~~~------~~~~~~li~~~~~~g~~~~  261 (287)
                      |...++++.+.. +.+...+..+..++...|+   +++|...+++..+.. -.|+      ...|..+...+...|++++
T Consensus       161 A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          161 ADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            999999998763 4456788888888888888   888999998887541 1233      2578888899999999999


Q ss_pred             HHHHHHHHhhcCCCCCChhhH
Q 023133          262 AMTIFEEMNSSLSDLAGPKDF  282 (287)
Q Consensus       262 a~~~~~~~~~~~~~~~~~~~~  282 (287)
                      |.+.|+++....|+++.....
T Consensus       240 A~~~~~~al~~~p~~~~a~~~  260 (272)
T 3u4t_A          240 ADAAWKNILALDPTNKKAIDG  260 (272)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHhcCccHHHHHHH
Confidence            999999999999988765443

>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=99.81  E-value=1e-19  Score=145.01  Aligned_cols=227  Identities=11%  Similarity=0.083  Sum_probs=97.1

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      -+.|++++|.+.++++...     .+|..++.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..
T Consensus        14 ~~~~~ld~A~~fae~~~~~-----~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP-----AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh-----HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            4678899999999998332     48999999999999999999999653      577789999999999999999999


Q ss_pred             HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC
Q 023133           90 FIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGV  169 (287)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  169 (287)
                      +++..++.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|.+++|..+|..+     
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----  148 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----  148 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT-----
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----
Confidence            88877774  4557888999999999999999988884       477789999999999999999999999976     


Q ss_pred             CCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHH
Q 023133          170 VPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSL  249 (287)
Q Consensus       170 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  249 (287)
                          ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|...|+++.|......+.     ..+.....+
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~l  213 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEEL  213 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHH
Confidence                47899999999999999999999988      278899999999999999999966555422     233345578


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          250 IDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      +..|.+.|++++|..+++......+..
T Consensus       214 v~~Yek~G~~eEai~lLe~aL~le~ah  240 (449)
T 1b89_A          214 INYYQDRGYFEELITMLEAALGLERAH  240 (449)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHTTSTTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHhCCcHHH
Confidence            899999999999999999998776544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.81  E-value=1.5e-17  Score=123.38  Aligned_cols=196  Identities=13%  Similarity=0.011  Sum_probs=148.0

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|+..|++.++.. +.+...+..+..++.+.|++++|...+++..+.. |.+...+..+...+
T Consensus         6 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~   83 (217)
T 2pl2_A            6 QNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAY   83 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            577788888888888888888888887653 3456777788888888888888888888888876 56677888888888


Q ss_pred             Hhc-----------CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          114 AKS-----------RQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       114 ~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ...           |++++|...|++..+.. +.+...+..+..++...|++++|+..|++..+..  .+...+..+..+
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~  160 (217)
T 2pl2_A           84 VALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAEL  160 (217)
T ss_dssp             HHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHH
T ss_pred             HHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHH
Confidence            888           99999999998887763 3356678888888899999999999999988876  578888888888


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..
T Consensus       161 ~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          161 YLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999888763 4466778888888889999999988887654

>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=99.81  E-value=5e-16  Score=119.32  Aligned_cols=224  Identities=11%  Similarity=0.001  Sum_probs=176.7

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHhcCCCCcHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM----TDDCTQLLIFIEEVVQIASPESIIVVNRI  109 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  109 (287)
                      .++..+...+...|++++|+..|++..+.   -+...+..+...+..    .+++++|...|++..+.+   +...+..+
T Consensus         7 ~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            7 KELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            56777788888888888888888888763   345667777777887    888888888888888765   56777778


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          110 IFAFAK----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR----VGRVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       110 ~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                      ...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+..
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            888888    888888888888887753   66677788888888    888888888888888765   5566777777


Q ss_pred             HHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHH
Q 023133          182 NLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR----TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       182 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      .|..    .+++++|...+++..+.+   +...+..+...|..    .+++++|.+.|++..+.+   +...+..+...+
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~  228 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQ  228 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHH
Confidence            7777    888888888888888764   45677778888888    888888988888888764   356677777788


Q ss_pred             Hh----cCChHHHHHHHHHHhhcCCC
Q 023133          254 KK----MGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       254 ~~----~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ..    .+++++|.++|++..+..|+
T Consensus       229 ~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          229 YNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             HTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HcCCCcccCHHHHHHHHHHHHHcCCH
Confidence            87    88888898888888777664

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.80  E-value=1.1e-17  Score=126.01  Aligned_cols=203  Identities=13%  Similarity=0.086  Sum_probs=107.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      .+..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  102 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYV  102 (243)
T ss_dssp             -----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHH
Confidence            44444455555555555555555555543 3445555555556666666666666665555432 234445555556666


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  229 (287)
                      ..|++++|...++++.+... .+...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+
T Consensus       103 ~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  180 (243)
T 2q7f_A          103 VKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALS  180 (243)
T ss_dssp             HTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHH
Confidence            66666666666666555432 244555556666666666666666666655442 2345556666666666666666666


Q ss_pred             HHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          230 LFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .++++.+.. +.+..++..+...+...|++++|.+.++++.+..|+.+
T Consensus       181 ~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~  227 (243)
T 2q7f_A          181 QFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHM  227 (243)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchH
Confidence            666665542 23455566666666666666666666666666666544

>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=99.80  E-value=3.2e-16  Score=118.80  Aligned_cols=200  Identities=11%  Similarity=-0.021  Sum_probs=175.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+...|
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            578888899999999999999999998764 4467888889999999999999999999999876 56788899999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      ...|++++|.+.++++.+.+..| +...+..+...+...|++++|...++++.+.... +...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRN-QPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-cHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999998732344 4567888999999999999999999999887533 678889999999999999999


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ...++++.+.. +.+...+..+...+...|++++|.++++++.+.
T Consensus       195 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999998764 456778889999999999999999999999875

>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=99.79  E-value=1.1e-16  Score=128.33  Aligned_cols=244  Identities=11%  Similarity=0.083  Sum_probs=161.0

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCC-hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETND-IDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      |+.+...+.+.|++++|+..|++....++....+|+.+..++...|+ +++|+..+++.+... +-+...|..+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            45566667777777777777777777766555777777777777775 777777777777653 2356677777777777


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh-cCCHHHH--
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR-VGRVNDM--  157 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a--  157 (287)
                      .|++++|+..++++++.. +.+..+|..+..++.+.|++++|+..|+++.+.. +.+...|+.+..++.. .|..++|  
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA~~  256 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVL  256 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHHHH
Confidence            777777777777777765 5666777777777777777777777777776653 3355667777777777 4554555  


Q ss_pred             ---HHHHHHHHHcCCCCChhHHHHHHHHHHhcC--chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC---------C
Q 023133          158 ---LNEFASMKEAGVVPDFISYNTLLNNLRKIR--RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG---------N  223 (287)
Q Consensus       158 ---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---------~  223 (287)
                         +..|++....... +...|..+...+...|  +.++|.+.+.++ +.. +.+...+..+..+|.+.|         .
T Consensus       257 ~~el~~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~~~~  333 (382)
T 2h6f_A          257 EREVQYTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNKEDI  333 (382)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred             HHHHHHHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccchHHH
Confidence               4666666665433 4566766666676666  567777777776 332 445566667777776653         2


Q ss_pred             HHHHHHHHHHH-HhCCCCcc-hHhHHHHHHHH
Q 023133          224 IEESLRLFNDM-KQQQIRPS-IYVYRSLIDNL  253 (287)
Q Consensus       224 ~~~a~~~~~~~-~~~~~~~~-~~~~~~li~~~  253 (287)
                      .++|.++|+++ .+.  .|. ...|..+...+
T Consensus       334 ~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l  363 (382)
T 2h6f_A          334 LNKALELCEILAKEK--DTIRKEYWRYIGRSL  363 (382)
T ss_dssp             HHHHHHHHHHHHHTT--CGGGHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh--CchhHHHHHHHHHHH
Confidence            47777777777 443  343 33444444433

>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=99.79  E-value=5.6e-17  Score=129.95  Aligned_cols=237  Identities=12%  Similarity=0.097  Sum_probs=202.0

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCC-hHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDD-CTQLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      .+|..+...+.+.|++++|+..+++.+... +-+...|+.+..++...|+ +++|+..++++++.. +.+..+|+.+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            578889999999999999999999999864 3367788899999999996 999999999999987 6788999999999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-cCchHH
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK-IRRLDL  191 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~  191 (287)
                      +...|++++|+..|+++.+.. +.+...|..+..++.+.|++++|+..|+++.+.... +...|+.+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCcchH
Confidence            999999999999999998875 457789999999999999999999999999988654 77899999999998 566577


Q ss_pred             H-----HHHHHHHhhCCCcCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcC-------
Q 023133          192 C-----LIYFREMGESGIKPDLLTYTALIDSFGRTG--NIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMG-------  257 (287)
Q Consensus       192 a-----~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-------  257 (287)
                      |     ...+++.++.. +-+...|..+...+...|  ++++|.+.+.++ +. .+.+...+..+...+.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccch
Confidence            7     58888888763 446778888898898888  689999999988 43 3445678888999998874       


Q ss_pred             --ChHHHHHHHHHH-hhcCCCCC
Q 023133          258 --KVDLAMTIFEEM-NSSLSDLA  277 (287)
Q Consensus       258 --~~~~a~~~~~~~-~~~~~~~~  277 (287)
                        ..++|.++|+++ .+..|...
T Consensus       331 ~~~~~~A~~~~~~l~~~~DP~r~  353 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKDTIRK  353 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             HHHHHHHHHHHHHHHHHhCchhH
Confidence              358999999999 78877543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.79  E-value=2.7e-17  Score=133.78  Aligned_cols=271  Identities=12%  Similarity=0.044  Sum_probs=211.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhc-----CCCCHHHHHHH
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSS-----RTLSSDCYTNF   74 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l   74 (287)
                      .+...+...|++++|+..|++..+.++..+    .++..+...+...|++++|+..+++..+..     .+.....+..+
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            456778899999999999999988866544    478889999999999999999999987541     12234577788


Q ss_pred             HHHHhccCChHHHHHHHHHHHhcC-----CCCcHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHHhcC
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQIA-----SPESIIVVNRIIFAFAKSRQ-----------------IEKALLIFDHIKGL  132 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~~  132 (287)
                      ...+...|++++|...+++..+..     .+....++..+...|...|+                 +++|...+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            899999999999999999887642     12345688889999999999                 99999998876542


Q ss_pred             ----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          133 ----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD----FISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       133 ----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                          +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence                1111 2347788889999999999999999998653211 11    237888899999999999999999988753


Q ss_pred             CC----c-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CcchHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          203 GI----K-PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QI-RPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       203 ~~----~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      ..    . ....++..+...|...|++++|...+++..+.    +. .....++..+...+...|++++|.++++++.+.
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            11    1 12467888999999999999999999998753    11 112457888899999999999999999999776


Q ss_pred             CC
Q 023133          273 LS  274 (287)
Q Consensus       273 ~~  274 (287)
                      .+
T Consensus       373 ~~  374 (411)
T 4a1s_A          373 AX  374 (411)
T ss_dssp             CC
T ss_pred             Hh
Confidence            54

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.79  E-value=3.5e-17  Score=123.35  Aligned_cols=199  Identities=12%  Similarity=0.072  Sum_probs=152.5

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .+|..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus        24 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  101 (243)
T 2q7f_A           24 MTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVY  101 (243)
T ss_dssp             ------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHH
Confidence            578888888899999999999999988753 4467788888888999999999999999988875 56778888899999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|++++|.
T Consensus       102 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~  179 (243)
T 2q7f_A          102 VVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNE-NDTEARFQFGMCLANEGMLDEAL  179 (243)
T ss_dssp             HHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999887754 44677888888999999999999999999887643 36778888889999999999999


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ..++++.+.. +.+..++..+..+|...|++++|.+.++++.+.
T Consensus       180 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          180 SQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            9999988764 446778888999999999999999999999875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.78  E-value=3.1e-17  Score=125.99  Aligned_cols=230  Identities=10%  Similarity=-0.020  Sum_probs=187.3

Q ss_pred             HhhcCChhHHHHHHHHHHHhcC---CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 023133           43 SAETNDIDLSFQILKDLLVSSR---TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI  119 (287)
Q Consensus        43 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  119 (287)
                      ....|++++|+..++++.+...   +.+..++..+...+...|++++|...++++.+.. +.+..++..+...|...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCH
Confidence            3456889999999999987632   1245678888999999999999999999999886 56788999999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHH
Q 023133          120 EKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREM  199 (287)
Q Consensus       120 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  199 (287)
                      ++|...|+++.+.. +.+...+..+..++...|++++|...|+++.+..  |+.......+..+...|++++|...+.+.
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            99999999998764 3467789999999999999999999999998864  44444455555667789999999999888


Q ss_pred             hhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          200 GESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR---PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       200 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .... +++...+ .++..+...++.++|.+.+++..+....   .+...+..+...+...|++++|...|+++....|+.
T Consensus       171 ~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  248 (275)
T 1xnf_A          171 FEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  248 (275)
T ss_dssp             HHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             HhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh
Confidence            7653 3343344 4777788889999999999998764211   125788899999999999999999999999988865


Q ss_pred             CC
Q 023133          277 AG  278 (287)
Q Consensus       277 ~~  278 (287)
                      ..
T Consensus       249 ~~  250 (275)
T 1xnf_A          249 FV  250 (275)
T ss_dssp             CH
T ss_pred             HH
Confidence            43

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.78  E-value=3.1e-16  Score=116.56  Aligned_cols=209  Identities=11%  Similarity=-0.001  Sum_probs=170.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .++..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            9 NIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            678888889999999999999999988763 4457788888889999999999999999998876 56778888899999


Q ss_pred             Hhc-CCHHHHHHHHHHHhcCCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH
Q 023133          114 AKS-RQIEKALLIFDHIKGLKCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL  191 (287)
Q Consensus       114 ~~~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  191 (287)
                      ... |++++|...++++.+.+..|+ ...+..+..++...|++++|...++++.+.... +...+..+...+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQ-FPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CchHHHHHHHHHHHcCCHHH
Confidence            999 999999999999887322333 567888888999999999999999998876433 57788889999999999999


Q ss_pred             HHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHH
Q 023133          192 CLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYR  247 (287)
Q Consensus       192 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  247 (287)
                      |...++++.+.....+...+..+...+...|+.++|..+++.+.+.  .|+.....
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~  219 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN--FPYSEELQ  219 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHH
Confidence            9999999887631156777888888889999999999999998764  35444433

>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=99.78  E-value=1.1e-17  Score=133.53  Aligned_cols=245  Identities=13%  Similarity=0.134  Sum_probs=109.7

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +|+.|+.++.+.|++++|++.|.+..     .+.+|..++.++...|++++|+..++..++.  .+++.+.+.++.+|.+
T Consensus        34 vWs~La~A~l~~g~~~eAIdsfika~-----D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~K  106 (449)
T 1b89_A           34 VWSQLAKAQLQKGMVKEAIDSYIKAD-----DPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAK  106 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHcCC-----CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHH
Confidence            58889999999999999999997632     1148999999999999999999977777663  4557778889999999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|+++++.++++       .|+..+|+.++..|...|.+++|...|..+         ..|..+..++.+.|++++|.+.
T Consensus       107 lg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea  170 (449)
T 1b89_A          107 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG  170 (449)
T ss_dssp             --CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHH
T ss_pred             hCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHH
Confidence            999999888774       366679999999999999999999999976         3788899999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ--  238 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--  238 (287)
                      +.++      .++.+|..++.+|...|+++.|......+.   ..|  .-...++..|.+.|.+++|..+++......  
T Consensus       171 ~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~---~~a--d~l~~lv~~Yek~G~~eEai~lLe~aL~le~a  239 (449)
T 1b89_A          171 ARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV---VHA--DELEELINYYQDRGYFEELITMLEAALGLERA  239 (449)
T ss_dssp             HHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT---TCH--HHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTC
T ss_pred             HHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH---hCH--hhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHH
Confidence            9887      267888998899998888888865544322   233  334467788888888888888887775321  


Q ss_pred             --------------------------------CCc------chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          239 --------------------------------IRP------SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       239 --------------------------------~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                                                      ++|      +...|.-+...|...++++.|..   .|.+..|+--...
T Consensus       240 h~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~---tm~~h~~~a~~~~  316 (449)
T 1b89_A          240 HMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII---TMMNHPTDAWKEG  316 (449)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH---HHHHSTTTTCCHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH---HHHhCChhhhhhH
Confidence                                            111      34456666777777777776655   4555555544444


Q ss_pred             hH
Q 023133          281 DF  282 (287)
Q Consensus       281 ~~  282 (287)
                      .|
T Consensus       317 ~f  318 (449)
T 1b89_A          317 QF  318 (449)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=99.78  E-value=2e-15  Score=116.01  Aligned_cols=220  Identities=11%  Similarity=0.035  Sum_probs=192.7

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh----cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE----TNDIDLSFQILKDLLVSSRTLSSDCYTNFARA   77 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~   77 (287)
                      +..+...+...|++++|+..|++..+.+  ++.++..+...+..    .+++++|+..|++..+.+   +...+..+...
T Consensus         9 ~~~lg~~~~~~~~~~~A~~~~~~a~~~~--~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~   83 (273)
T 1ouv_A            9 LVGLGAKSYKEKDFTQAKKYFEKACDLK--ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNL   83 (273)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            3457778899999999999999998833  33688899999999    999999999999998875   67888889999


Q ss_pred             Hhc----cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           78 FIM----TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        78 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      +..    .+++++|...+++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|.
T Consensus        84 ~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~  157 (273)
T 1ouv_A           84 YYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYD  157 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH
T ss_pred             HhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHH
Confidence            998    999999999999999875   67788899999999    999999999999998865   5667778888888


Q ss_pred             h----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh-
Q 023133          150 R----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR-  220 (287)
Q Consensus       150 ~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  220 (287)
                      .    .+++++|...|++..+.+   +...+..+...|..    .+++++|...+++..+.+   +...+..+...|.. 
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTT
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcC
Confidence            8    999999999999998874   56788889999999    999999999999999875   36678888899998 


Q ss_pred             ---cCCHHHHHHHHHHHHhCC
Q 023133          221 ---TGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       221 ---~g~~~~a~~~~~~~~~~~  238 (287)
                         .+++++|.+.|++..+.+
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCcccCHHHHHHHHHHHHHcC
Confidence               999999999999998764

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.76  E-value=7.2e-17  Score=127.20  Aligned_cols=272  Identities=12%  Similarity=0.093  Sum_probs=207.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHh----cCCC-CHHHHHHH
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVS----SRTL-SSDCYTNF   74 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l   74 (287)
                      .....+...|++++|...|++..+.++..+    ..+..+...+...|++++|...+++....    +..| ....+..+
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            356778899999999999999988766543    46788899999999999999999987643    1122 24567788


Q ss_pred             HHHHhccCChHHHHHHHHHHHhcCCC-C----cHHHHHHHHHHHHhcCC--------------------HHHHHHHHHHH
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQIASP-E----SIIVVNRIIFAFAKSRQ--------------------IEKALLIFDHI  129 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~  129 (287)
                      ...+...|++++|...+++..+.... +    ...++..+...|...|+                    +++|...+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            88999999999999999987654211 1    24478889999999999                    99999998876


Q ss_pred             hcC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhcCchHHHHHHHHHH
Q 023133          130 KGL----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD----FISYNTLLNNLRKIRRLDLCLIYFREM  199 (287)
Q Consensus       130 ~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~  199 (287)
                      .+.    +..+ ...++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  249 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKT  249 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            432    1111 2346788889999999999999999987643110 11    237888889999999999999999988


Q ss_pred             hhC----CCcC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-cchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          200 GES----GIKP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QIR-PSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       200 ~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      .+.    +..+ ...++..+...+...|++++|...+++..+.    +-. ....++..+...+...|++++|...++++
T Consensus       250 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          250 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            643    1111 1457788899999999999999999988753    111 12447788899999999999999999999


Q ss_pred             hhcCCC
Q 023133          270 NSSLSD  275 (287)
Q Consensus       270 ~~~~~~  275 (287)
                      .+..+.
T Consensus       330 ~~~~~~  335 (338)
T 3ro2_A          330 LEISRE  335 (338)
T ss_dssp             HHC---
T ss_pred             HHHHHh
Confidence            887654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.75  E-value=8.8e-15  Score=114.42  Aligned_cols=224  Identities=10%  Similarity=0.038  Sum_probs=166.2

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHh-------ccCCh-------HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           50 DLSFQILKDLLVSSRTLSSDCYTNFARAFI-------MTDDC-------TQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      ++|..+|++.+... +.+...|..++..+.       +.|++       ++|..+|++.++.-.+.+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            57777888877653 445667776666654       34775       8888888888873224566788888888888


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCC-Hh-hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH-hcCchHHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPD-LI-TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR-KIRRLDLC  192 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a  192 (287)
                      .|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++..+... ++...|........ ..|+.++|
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHH
Confidence            89999999999888875  454 33 788888888888899999999988887643 24444543333322 36889999


Q ss_pred             HHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCc--chHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          193 LIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ-IRP--SIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      ..+|++..+.. +.+...|..++..+.+.|++++|..+|++..+.. +.|  ....|..++....+.|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99998887652 3356778888888888899999999999988752 354  3567888888888889999999999999


Q ss_pred             hhcCCCCCC
Q 023133          270 NSSLSDLAG  278 (287)
Q Consensus       270 ~~~~~~~~~  278 (287)
                      .+..|+.+.
T Consensus       268 ~~~~p~~~~  276 (308)
T 2ond_A          268 FTAFREEYE  276 (308)
T ss_dssp             HHHTTTTTS
T ss_pred             HHHcccccc
Confidence            888887553

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.75  E-value=1.6e-16  Score=128.76  Aligned_cols=272  Identities=12%  Similarity=0.077  Sum_probs=209.7

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhc----CCC-CHHHHHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSS----RTL-SSDCYTN   73 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~   73 (287)
                      ......+...|++++|...|++..+.++..+    .++..+...+...|++++|...+++.....    ..| ...++..
T Consensus        13 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   92 (406)
T 3sf4_A           13 ALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   92 (406)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHH
Confidence            3466788899999999999999988766543    468889999999999999999999876431    122 2456777


Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCC-----CCcHHHHHHHHHHHHhcCC--------------------HHHHHHHHHH
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIAS-----PESIIVVNRIIFAFAKSRQ--------------------IEKALLIFDH  128 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~  128 (287)
                      +...+...|++++|...+++..+...     .....++..+...|...|+                    +++|...+++
T Consensus        93 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  172 (406)
T 3sf4_A           93 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEE  172 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            88899999999999999998875421     1124578889999999999                    9999999887


Q ss_pred             HhcC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCC----hhHHHHHHHHHHhcCchHHHHHHHHH
Q 023133          129 IKGL----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEAGV-VPD----FISYNTLLNNLRKIRRLDLCLIYFRE  198 (287)
Q Consensus       129 ~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~  198 (287)
                      ..+.    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++
T Consensus       173 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  252 (406)
T 3sf4_A          173 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  252 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            6432    2112 234678888999999999999999999765311 112    23788889999999999999999998


Q ss_pred             HhhC----CCcCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCc-chHhHHHHHHHHHhcCChHHHHHHHHH
Q 023133          199 MGES----GIKPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QIRP-SIYVYRSLIDNLKKMGKVDLAMTIFEE  268 (287)
Q Consensus       199 ~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (287)
                      ..+.    +..+. ..++..+...|...|++++|...+++..+.    +-.+ ...++..+...+...|++++|.+.+++
T Consensus       253 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  332 (406)
T 3sf4_A          253 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  332 (406)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8643    11111 457888999999999999999999998753    1111 155788888999999999999999999


Q ss_pred             HhhcCC
Q 023133          269 MNSSLS  274 (287)
Q Consensus       269 ~~~~~~  274 (287)
                      ..+..+
T Consensus       333 al~~~~  338 (406)
T 3sf4_A          333 HLEISR  338 (406)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            866543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.74  E-value=9.3e-16  Score=126.98  Aligned_cols=268  Identities=10%  Similarity=-0.022  Sum_probs=177.9

Q ss_pred             cCChhHHHHHHHHHhhcCCCCchhHHHHHHH---HhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh----ccCCh
Q 023133           12 AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVA---SAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI----MTDDC   84 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~   84 (287)
                      .+++++|++.|++..+.++..+..+..+..+   +...++.++|++.+++.++.. +.+...+..+...+.    ..+++
T Consensus       151 ~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~  229 (472)
T 4g1t_A          151 GNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEE  229 (472)
T ss_dssp             TTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------
T ss_pred             cccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHH
Confidence            3578999999999998887666566555554   445677889999999988763 335556655554444    34678


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc-------------
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV-------------  151 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------  151 (287)
                      ++|.+.+++..+.. +.+..++..+...|...|++++|...+++..+.. +.+..++..+..+|...             
T Consensus       230 ~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~  307 (472)
T 4g1t_A          230 GEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMY  307 (472)
T ss_dssp             CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            89999999998876 6778889999999999999999999999988763 33455666666555332             


Q ss_pred             ------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHH--HHHHHHH-HHHhcC
Q 023133          152 ------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLL--TYTALID-SFGRTG  222 (287)
Q Consensus       152 ------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~-~~~~~g  222 (287)
                            +.++.|...++...+.... +..++..+...+...|++++|...|++..+....+...  .+..+.. .+...|
T Consensus       308 ~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~  386 (472)
T 4g1t_A          308 GKRKLLELIGHAVAHLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMK  386 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSS
T ss_pred             HHHHHHhhHHHHHHHHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCC
Confidence                  2356788888888776433 56778889999999999999999999998764333221  2223332 245779


Q ss_pred             CHHHHHHHHHHHHhCC-----------------------CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          223 NIEESLRLFNDMKQQQ-----------------------IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       223 ~~~~a~~~~~~~~~~~-----------------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      ++++|+..|++..+..                       -+.+..+|..+...+...|++++|.+.|+++.+..|..|..
T Consensus       387 ~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a  466 (472)
T 4g1t_A          387 CEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSA  466 (472)
T ss_dssp             CHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-------------------
T ss_pred             CHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcH
Confidence            9999999998876532                       12346788899999999999999999999999999999888


Q ss_pred             hhHh
Q 023133          280 KDFK  283 (287)
Q Consensus       280 ~~~~  283 (287)
                      .+|.
T Consensus       467 ~~~~  470 (472)
T 4g1t_A          467 SSWN  470 (472)
T ss_dssp             ----
T ss_pred             hhcC
Confidence            7765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.73  E-value=1.3e-13  Score=114.72  Aligned_cols=248  Identities=9%  Similarity=0.030  Sum_probs=161.3

Q ss_pred             HHHHHHh----cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh----cCChhHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 023133            5 YIEKLCK----AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE----TNDIDLSFQILKDLLVSSRTLSSDCYTNFAR   76 (287)
Q Consensus         5 li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   76 (287)
                      |...|..    .+++++|...|++..+.+.  +.++..|...|..    .+++++|...|++..+.|   +...+..+..
T Consensus        45 lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~  119 (490)
T 2xm6_A           45 LGYRYFQGNETTKDLTQAMDWFRRAAEQGY--TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGV  119 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHcCCCCCcCHHHHHHHHHHHHHCCC--HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            4445555    6777888888877766542  2467777777777    777888888887776654   4555666666


Q ss_pred             HHhc----cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           77 AFIM----TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        77 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      .+..    .+++++|..+|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|
T Consensus       120 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y  193 (490)
T 2xm6_A          120 MYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMY  193 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            6666    667777888777777654   34556666666766    667777777777776643   455666666666


Q ss_pred             Hh----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          149 GR----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       149 ~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      ..    .+++++|...|++..+.|   +...+..+...|..    .+++++|..+|++..+.|   +...+..+...|..
T Consensus       194 ~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~  267 (490)
T 2xm6_A          194 SRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQ  267 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHH
T ss_pred             hcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHC
Confidence            66    677777777777776654   44555566666654    566777777777766553   34455555555655


Q ss_pred             ----cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhc-----CChHHHHHHHHHHhhc
Q 023133          221 ----TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKM-----GKVDLAMTIFEEMNSS  272 (287)
Q Consensus       221 ----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~~~~~  272 (287)
                          .++.++|.++|++..+.|   +...+..+...+...     +++++|..+|+++.+.
T Consensus       268 g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~  325 (490)
T 2xm6_A          268 GLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ  325 (490)
T ss_dssp             TTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc
Confidence                666777777777666553   334455555555555     6666666666666544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.73  E-value=7.4e-15  Score=121.56  Aligned_cols=274  Identities=11%  Similarity=-0.009  Sum_probs=161.5

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhc-------CCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhc------CC
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDK-------NIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSS------RT   65 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~   65 (287)
                      +||.|...+...|++++|++.|++..+.       ...+.  .+|+.+..+|...|++++|...+++..+..      ..
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~  132 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYR  132 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccc
Confidence            3788999999999999999999876432       11222  678999999999999999999998876531      11


Q ss_pred             C-CHHHHHHHHHHHhc--cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH---hcCCHHHHHHHHHHHhcCCCCCCHh
Q 023133           66 L-SSDCYTNFARAFIM--TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA---KSRQIEKALLIFDHIKGLKCKPDLI  139 (287)
Q Consensus        66 ~-~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~  139 (287)
                      + ...++..+..++..  .+++++|...|++..+.. |.+...+..+..++.   ..++.++|++.+++..+.. +.+..
T Consensus       133 ~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~  210 (472)
T 4g1t_A          133 IESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQY  210 (472)
T ss_dssp             CCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHH
T ss_pred             hhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchH
Confidence            1 24456555555544  457889999999988876 344555555544432   3445556666666555432 22333


Q ss_pred             hHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCC-----------
Q 023133          140 TYNIVLDILGR----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGI-----------  204 (287)
Q Consensus       140 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------  204 (287)
                      .+..+...+..    .+++++|...+++....... +..++..+...|...|++++|...+.+..+...           
T Consensus       211 ~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~  289 (472)
T 4g1t_A          211 LKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGC  289 (472)
T ss_dssp             HHHHHHHHHHHCC------CHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCChHHHHHHHHH
Confidence            34333333322    34455566666555544322 444555555556666666666665555544310           


Q ss_pred             -----------------------------------------cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcch
Q 023133          205 -----------------------------------------KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI  243 (287)
Q Consensus       205 -----------------------------------------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  243 (287)
                                                               +.+..++..+...|...|++++|.+.|++..+....+..
T Consensus       290 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~  369 (472)
T 4g1t_A          290 CYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVA  369 (472)
T ss_dssp             HHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChH
Confidence                                                     112223445566667777777777777777765333222


Q ss_pred             H--hHHHHHH-HHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          244 Y--VYRSLID-NLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       244 ~--~~~~li~-~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .  .+..+.. .....|++++|...|++.....|+..
T Consensus       370 ~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~  406 (472)
T 4g1t_A          370 KQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSR  406 (472)
T ss_dssp             HHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccH
Confidence            1  2222222 23456777777777777777766553

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=2.5e-14  Score=111.84  Aligned_cols=219  Identities=9%  Similarity=-0.004  Sum_probs=178.5

Q ss_pred             hHHHHHHHHHhhcCCCCchhHHHHHHHHhh-------cCCh-------hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133           16 SAAVRLLQSLRDKNIFLPNAYNCVLVASAE-------TNDI-------DLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      ++|..+|++.....+..+..|..++..+..       .|++       ++|..+|++.++.-.+-+...|..++..+.+.
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            688899999998877666888888887763       5886       89999999998731233566888999999999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHH-HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH-hcCCHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESII-VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG-RVGRVNDMLN  159 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~a~~  159 (287)
                      |++++|..+|+++++.. +.+.. +|..++..+.+.|++++|..+|++..+.. +++...|........ ..|++++|..
T Consensus       113 ~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TCHHHHHHHHHHHHTSS-SSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcc-ccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999864 33444 89999999999999999999999998864 334445544333322 3799999999


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC-CcC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG-IKP--DLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +|+...+.... +...|..++..+.+.|+.++|..+|++..+.. +.|  ....|..++..+.+.|+.+.|..+++++.+
T Consensus       191 ~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~  269 (308)
T 2ond_A          191 IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99999876433 67889999999999999999999999999863 344  467888899999999999999999999987


Q ss_pred             C
Q 023133          237 Q  237 (287)
Q Consensus       237 ~  237 (287)
                      .
T Consensus       270 ~  270 (308)
T 2ond_A          270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.72  E-value=4.3e-15  Score=107.13  Aligned_cols=170  Identities=11%  Similarity=0.047  Sum_probs=97.6

Q ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          102 SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       102 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                      +..+|..+...|.+.|++++|++.|++..+.. +-+..++..+..+|.+.|++++|...+......... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            34555556666666666666666666555442 234445555566666666666666666665554332 3445555555


Q ss_pred             HHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHH
Q 023133          182 NLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDL  261 (287)
Q Consensus       182 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  261 (287)
                      .+...++++.+...+.+..+.. +.+...+..+..+|.+.|++++|++.|++..+.. +.+...+..+..++.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            5566666666666666655442 3345555566666666666666666666666542 2344556666666666666666


Q ss_pred             HHHHHHHHhhcCCC
Q 023133          262 AMTIFEEMNSSLSD  275 (287)
Q Consensus       262 a~~~~~~~~~~~~~  275 (287)
                      |.+.|+++.+..|+
T Consensus       160 A~~~~~~al~~~p~  173 (184)
T 3vtx_A          160 AVKYFKKALEKEEK  173 (184)
T ss_dssp             HHHHHHHHHHTTHH
T ss_pred             HHHHHHHHHhCCcc
Confidence            66666666665553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.71  E-value=3e-13  Score=112.62  Aligned_cols=248  Identities=13%  Similarity=0.094  Sum_probs=125.2

Q ss_pred             HHHHHHh----cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh----cCChhHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 023133            5 YIEKLCK----AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE----TNDIDLSFQILKDLLVSSRTLSSDCYTNFAR   76 (287)
Q Consensus         5 li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~   76 (287)
                      |...|..    .+++++|.+.|++..+.+  .+.++..|...|..    .+++++|+..|++..+.|   +...+..+..
T Consensus        81 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~--~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~  155 (490)
T 2xm6_A           81 LGLRYMNGEGVPQDYAQAVIWYKKAALKG--LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGD  155 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            4444555    566666666666655543  22345555555555    556666666666655443   3344444544


Q ss_pred             HHhc----cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           77 AFIM----TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        77 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      .|..    .+++++|.++|++..+.+   +...+..+...|..    .+++++|.+.|++..+.|   +...+..+...|
T Consensus       156 ~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  229 (490)
T 2xm6_A          156 AYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMY  229 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            4444    455555665555555543   34444455555554    455555555555554432   233333444444


Q ss_pred             H------------------------------------h----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc--
Q 023133          149 G------------------------------------R----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI--  186 (287)
Q Consensus       149 ~------------------------------------~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  186 (287)
                      .                                    .    .+++++|...|+...+.|   +...+..+...|...  
T Consensus       230 ~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~  306 (490)
T 2xm6_A          230 YFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAE  306 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBT
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCC
Confidence            3                                    3    444445555444444332   233444444444444  


Q ss_pred             ---CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh----c
Q 023133          187 ---RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG---NIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK----M  256 (287)
Q Consensus       187 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~  256 (287)
                         ++.++|...+++..+.|   +...+..+...|...|   ++++|.++|++..+.|   +...+..+...|..    .
T Consensus       307 g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~  380 (490)
T 2xm6_A          307 GVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVK  380 (490)
T ss_dssp             TBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSC
T ss_pred             CCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCC
Confidence               45555555555554443   2334444444444434   4555555555555542   44455555555555    5


Q ss_pred             CChHHHHHHHHHHhhc
Q 023133          257 GKVDLAMTIFEEMNSS  272 (287)
Q Consensus       257 g~~~~a~~~~~~~~~~  272 (287)
                      +++++|.++|++..+.
T Consensus       381 ~~~~~A~~~~~~A~~~  396 (490)
T 2xm6_A          381 KDEQQAAIWMRKAAEQ  396 (490)
T ss_dssp             CCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHhC
Confidence            6666666666666543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.71  E-value=2.6e-15  Score=124.28  Aligned_cols=213  Identities=12%  Similarity=0.094  Sum_probs=181.7

Q ss_pred             hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh-HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133           49 IDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC-TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFD  127 (287)
Q Consensus        49 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  127 (287)
                      +++++..+++.... .+.+...+..+..++...|++ ++|++.|++.++.. +.+...|..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55666666665543 234678888899999999999 99999999999886 5678899999999999999999999999


Q ss_pred             HHhcCCCCCCHhhHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc--------CchH
Q 023133          128 HIKGLKCKPDLITYNIVLDILGRV---------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI--------RRLD  190 (287)
Q Consensus       128 ~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~  190 (287)
                      +..+.  .|+...+..+..++...         |++++|...|++..+.... +...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccchHH
Confidence            99987  47778889999999999         9999999999999887543 678899999999998        9999


Q ss_pred             HHHHHHHHHhhCCCc---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHH
Q 023133          191 LCLIYFREMGESGIK---PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  267 (287)
                      +|...|++..+.. +   .+...|..+..+|...|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.+.
T Consensus       239 ~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          239 QALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999998863 3   478899999999999999999999999998753 3356678888889999999999987554


Q ss_pred             H
Q 023133          268 E  268 (287)
Q Consensus       268 ~  268 (287)
                      +
T Consensus       317 ~  317 (474)
T 4abn_A          317 K  317 (474)
T ss_dssp             T
T ss_pred             c
Confidence            3

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.71  E-value=2.1e-16  Score=123.36  Aligned_cols=241  Identities=12%  Similarity=0.102  Sum_probs=169.0

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHh-------cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhc------C-C
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVS-------SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQI------A-S   99 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~   99 (287)
                      .++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...++++.+.      + .
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            67888899999999999999999998763       22334566778888899999999999999888764      2 2


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC------CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-----
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL------KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEA-----  167 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----  167 (287)
                      +....++..+...|...|++++|...+++..+.      +..| ....+..+...+...|++++|..+++++.+.     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            345678888999999999999999999887653      2122 3446788888999999999999999998664     


Q ss_pred             -CCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC-------CCcCC-------HHHHHHHHHHHHhcCCHHHHHHHH
Q 023133          168 -GVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGES-------GIKPD-------LLTYTALIDSFGRTGNIEESLRLF  231 (287)
Q Consensus       168 -~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~-------~~~~~~l~~~~~~~g~~~~a~~~~  231 (287)
                       +..| ...++..+...+...|++++|...++++.+.       ...+.       ...+..+...+...+.+.++...+
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~  267 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWY  267 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Confidence             2122 3456788888999999999999999988753       11111       112223333444555666666677


Q ss_pred             HHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          232 NDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ...... .+.+..++..+..+|.+.|++++|.++|+++.+..|.
T Consensus       268 ~~~~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          268 KACKVD-SPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             -------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             hhcCCC-CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            766653 2345678888999999999999999999999876553

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.70  E-value=1.4e-14  Score=104.42  Aligned_cols=167  Identities=10%  Similarity=0.089  Sum_probs=109.9

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHH
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLD  146 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  146 (287)
                      +...|..+...+...|++++|++.|++.++.. |.+..++..+..+|.+.|++++|...+....... +.+...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            44556666666667777777777777766665 4556666667777777777777777776665543 234445556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      .+...++++.|...+.+..+.... +...+..+...+.+.|++++|.+.|++..+.. +.+..++..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            666777777777777776655332 55666666777777777777777777766653 3455667777777777777777


Q ss_pred             HHHHHHHHHhC
Q 023133          227 SLRLFNDMKQQ  237 (287)
Q Consensus       227 a~~~~~~~~~~  237 (287)
                      |++.|++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            77777777653

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.68  E-value=4.7e-15  Score=122.73  Aligned_cols=215  Identities=7%  Similarity=-0.026  Sum_probs=182.8

Q ss_pred             hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCCh-hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDI-DLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEE   93 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~   93 (287)
                      +++++..++......+.....+..+...+...|++ ++|++.|++.++.. +-+...+..+..++...|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            56677777776665543338899999999999999 99999999998864 34578899999999999999999999999


Q ss_pred             HHhcCCCCcHHHHHHHHHHHHhc---------CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc--------CCHHH
Q 023133           94 VVQIASPESIIVVNRIIFAFAKS---------RQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV--------GRVND  156 (287)
Q Consensus        94 ~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~  156 (287)
                      ..+..  |+...+..+...|...         |++++|...|++..+.. +.+...|..+..+|...        |++++
T Consensus       163 al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 ALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            99875  5578999999999999         99999999999998764 44677899999999988        99999


Q ss_pred             HHHHHHHHHHcCCC--CChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          157 MLNEFASMKEAGVV--PDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       157 a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      |...|++..+....  -+...|..+..+|...|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.+.++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999999886431  277889999999999999999999999998764 446678888999999999999998766543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.68  E-value=3.9e-16  Score=121.89  Aligned_cols=234  Identities=11%  Similarity=0.091  Sum_probs=168.1

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhc-------CCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHh------cC-CC
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDK-------NIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVS------SR-TL   66 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~-------~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~   66 (287)
                      +..+...+...|++++|...|+++.+.       +.... .++..+...+...|++++|...+++....      +. +.
T Consensus        30 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  109 (311)
T 3nf1_A           30 LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPA  109 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChH
Confidence            567888999999999999999998763       22122 78899999999999999999999998764      21 22


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhc------C-CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC------C
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQI------A-SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL------K  133 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~  133 (287)
                      ...++..+...+...|++++|...++++.+.      + .+....++..+...+...|++++|.+.++++.+.      +
T Consensus       110 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  189 (311)
T 3nf1_A          110 VAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGP  189 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCC
Confidence            3567788889999999999999999998765      2 2334567888999999999999999999988653      1


Q ss_pred             CCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc-------CCCCChh-------HHHHHHHHHHhcCchHHHHHHHHH
Q 023133          134 CKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEA-------GVVPDFI-------SYNTLLNNLRKIRRLDLCLIYFRE  198 (287)
Q Consensus       134 ~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~  198 (287)
                      ..| ...++..+..+|...|++++|...++++.+.       ...+...       .+..+...+...+.+.++...+..
T Consensus       190 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  269 (311)
T 3nf1_A          190 DDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKA  269 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-----
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhh
Confidence            122 3457888999999999999999999998753       1122211       122223334445556666667766


Q ss_pred             HhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          199 MGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       199 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ..... +.+..++..+..+|...|++++|.+.|++..+
T Consensus       270 ~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          270 CKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ----C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66542 34556788999999999999999999999875

>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=3.5e-13  Score=113.27  Aligned_cols=153  Identities=12%  Similarity=0.099  Sum_probs=107.0

Q ss_pred             HHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhcCchHHHHHHHHH
Q 023133          121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD--FISYNTLLNNLRKIRRLDLCLIYFRE  198 (287)
Q Consensus       121 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~  198 (287)
                      +|..+|++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.  .|+  ...|...+..+.+.|+.++|.++|++
T Consensus       304 ~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  381 (530)
T 2ooe_A          304 EAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  381 (530)
T ss_dssp             HHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            77777777765211334667777888888888888888888888775  333  24677777777778888888888888


Q ss_pred             HhhCCCcCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          199 MGESGIKPDLLTYTALIDS-FGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       199 ~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      ..+.. +.+...|...... +...|+.++|.++|++..+.. +.+...|..++..+.+.|+.++|..+|+++....|..|
T Consensus       382 Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~  459 (530)
T 2ooe_A          382 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  459 (530)
T ss_dssp             HHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCG
T ss_pred             HHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCH
Confidence            87652 2222223222222 335788888888888887652 33567888888888888999999999998888766554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.67  E-value=1.1e-13  Score=111.17  Aligned_cols=270  Identities=8%  Similarity=-0.021  Sum_probs=196.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCc-----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-CCH----HHHHHH
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLP-----NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-LSS----DCYTNF   74 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~l   74 (287)
                      ....+...|++++|...+++.....+..+     .++..+...+...|++++|...+++....... ++.    .++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            44567789999999999999877654332     25677778889999999999999998754211 122    235667


Q ss_pred             HHHHhccCChHHHHHHHHHHHhc----CCC--C-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCC--C--CHhhHHH
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQI----ASP--E-SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCK--P--DLITYNI  143 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~~~~~  143 (287)
                      ...+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++.......  +  ...++..
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            78888999999999999988654    221  2 3456777888999999999999999887653211  1  2346778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCh-hHHH-----HHHHHHHhcCchHHHHHHHHHHhhCCCcC---CHHHHHHH
Q 023133          144 VLDILGRVGRVNDMLNEFASMKEAGVVPDF-ISYN-----TLLNNLRKIRRLDLCLIYFREMGESGIKP---DLLTYTAL  214 (287)
Q Consensus       144 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l  214 (287)
                      +...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++.......+   ....+..+
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            888899999999999999998654222211 1222     23344778999999999999987643211   13356678


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCCcch-HhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          215 IDSFGRTGNIEESLRLFNDMKQQ----QIRPSI-YVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       215 ~~~~~~~g~~~~a~~~~~~~~~~----~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      ...+...|++++|...+++..+.    |..++. ..+..+..++...|+.++|...+++.....+
T Consensus       260 a~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~  324 (373)
T 1hz4_A          260 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLAN  324 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhc
Confidence            88999999999999999988643    322233 3667778888999999999999998866543

>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=99.66  E-value=2.8e-14  Score=102.55  Aligned_cols=174  Identities=12%  Similarity=0.086  Sum_probs=137.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHH
Confidence            4556677778888888888888888877653 34566777888888888888888888888877643 356777888888


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHH
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLA  262 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  262 (287)
                      +...|++++|.+.++++.+.. +.+...+..+..++...|++++|.+.++++.+.. +.+...+..+...+...|++++|
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHH
Confidence            888888999998888887653 4567788888888899999999999999888753 44567888888889999999999


Q ss_pred             HHHHHHHhhcCCCCCChh
Q 023133          263 MTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~  280 (287)
                      .+.++++....|+.+...
T Consensus       164 ~~~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          164 LPHFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHHHcCCCchhhH
Confidence            999999888777665443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.63  E-value=6.9e-14  Score=112.72  Aligned_cols=233  Identities=9%  Similarity=0.022  Sum_probs=178.2

Q ss_pred             HHHHHhhcCChhHHHHHHHHHHHhcC-CC----CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCC------CCcHHHHH
Q 023133           39 VLVASAETNDIDLSFQILKDLLVSSR-TL----SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS------PESIIVVN  107 (287)
Q Consensus        39 l~~~~~~~~~~~~a~~~~~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~  107 (287)
                      ....+...|++++|+..+++..+.-. .+    ...++..+...+...|+++.|...+++..+...      +....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            56677889999999999999976411 12    235778888999999999999999998876421      12346788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CC-CCChhHHH
Q 023133          108 RIIFAFAKSRQIEKALLIFDHIKGL----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKEA----GV-VPDFISYN  177 (287)
Q Consensus       108 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  177 (287)
                      .+...|...|++++|...|++..+.    +-.+ ...++..+..+|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8999999999999999999887643    1111 1237888999999999999999999998762    22 33456788


Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhhC----CCcCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcc-hHhHHHH
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGES----GIKPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPS-IYVYRSL  249 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~l  249 (287)
                      .+...+.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|+.++++.   +..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHH
Confidence            8999999999999999999988653    112223346678888889999   77777777765   33333 4567788


Q ss_pred             HHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          250 IDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       250 i~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      ...|...|++++|.++|++......
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHH
Confidence            8999999999999999999966543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.62  E-value=4e-14  Score=115.01  Aligned_cols=241  Identities=9%  Similarity=0.026  Sum_probs=186.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHhcC-----CCCcHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS----DCYTNFARAFIMTDDCTQLLIFIEEVVQIA-----SPESII  104 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~  104 (287)
                      ..+..+...+...|++++|+..|++.++.... +.    ..+..+...+...|++++|...+++..+..     .+....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            45666778889999999999999999986422 33    467788899999999999999999887541     134557


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcC----CC-CCCHhhHHHHHHHHHhcCC-----------------HHHHHHHHH
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGL----KC-KPDLITYNIVLDILGRVGR-----------------VNDMLNEFA  162 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  162 (287)
                      ++..+...|...|++++|...+++..+.    +- +....++..+...|...|+                 +++|...++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            8888999999999999999999887643    11 1234478888899999999                 999999998


Q ss_pred             HHHHc----CCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCC-cCC----HHHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          163 SMKEA----GVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGI-KPD----LLTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       163 ~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      +..+.    +..+ ...++..+...+...|++++|...+++..+... .++    ...+..+...|...|++++|...++
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            86542    1111 235778888999999999999999998875311 112    2377888999999999999999999


Q ss_pred             HHHhCC----CC-cchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          233 DMKQQQ----IR-PSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       233 ~~~~~~----~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      +..+..    .. ....++..+...+...|++++|..+++++....+.
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  335 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQE  335 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            887531    11 12567888899999999999999999998765443

>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=99.62  E-value=1.1e-13  Score=103.21  Aligned_cols=206  Identities=9%  Similarity=0.001  Sum_probs=162.1

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHH
Q 023133           66 LSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVL  145 (287)
Q Consensus        66 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  145 (287)
                      .++..+......+...|++++|...|++.++...+++...+..+..++...|++++|...|++..+.. +.+...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45678888899999999999999999999998744777888889999999999999999999998774 33566888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCh-------hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC---HHHHHHHH
Q 023133          146 DILGRVGRVNDMLNEFASMKEAGVVPDF-------ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD---LLTYTALI  215 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~  215 (287)
                      .+|...|++++|...+++..+.... +.       ..|..+...+...|++++|.+.|++..+.  .|+   ...+..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            9999999999999999999886432 34       45778888899999999999999999886  454   46777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHh
Q 023133          216 DSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFK  283 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  283 (287)
                      .+|...|     ..+++++...+ ..+...+....  ....+.+++|...|++..+..|+++.....+
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l  220 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQ  220 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHH
Confidence            7776544     44556665542 23344444443  3345678999999999999999887655443

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=1.7e-13  Score=110.39  Aligned_cols=229  Identities=10%  Similarity=0.056  Sum_probs=176.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhc----CCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC------CHHHHH
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDK----NIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL------SSDCYT   72 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~   72 (287)
                      ....+...|++++|...|++....    +..+.  .++..+...+...|+++.|+..+++..+.....      ...++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            456678899999999999998764    22221  688999999999999999999999987642111      235778


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhcCC-----CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CC-CCCHhhHH
Q 023133           73 NFARAFIMTDDCTQLLIFIEEVVQIAS-----PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KC-KPDLITYN  142 (287)
Q Consensus        73 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~  142 (287)
                      .+..++...|++++|...+++..+...     +....++..+...|...|++++|...+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            888999999999999999998875421     112357888999999999999999999988762    22 23355788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc----CCCCChhHHHHHHHHHHhcCc---hHHHHHHHHHHhhCCCcCC-HHHHHHH
Q 023133          143 IVLDILGRVGRVNDMLNEFASMKEA----GVVPDFISYNTLLNNLRKIRR---LDLCLIYFREMGESGIKPD-LLTYTAL  214 (287)
Q Consensus       143 ~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l  214 (287)
                      .+..++.+.|++++|...+++..+.    +-+.....+..+...+...|+   .++|..++++..   ..|+ ...+..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~---~~~~~~~~~~~l  345 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM---LYADLEDFAIDV  345 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc---CHHHHHHHHHHH
Confidence            8999999999999999999987653    111122345677788888888   777777777652   2333 3467789


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 023133          215 IDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       215 ~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ...|...|++++|...+++..+
T Consensus       346 a~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          346 AKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999999999999999874

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.61  E-value=3.2e-14  Score=115.14  Aligned_cols=258  Identities=10%  Similarity=-0.003  Sum_probs=193.8

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhc----CCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-CC----HHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDK----NIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-LS----SDC   70 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~   70 (287)
                      |..+...+...|++++|...|++....    +..+.  .++..+...+...|++++|...+++....... ++    ..+
T Consensus        50 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  129 (406)
T 3sf4_A           50 YSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARA  129 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHH
Confidence            566788999999999999999886443    22222  67888999999999999999999988754211 12    347


Q ss_pred             HHHHHHHHhccCC--------------------hHHHHHHHHHHHhc----C-CCCcHHHHHHHHHHHHhcCCHHHHHHH
Q 023133           71 YTNFARAFIMTDD--------------------CTQLLIFIEEVVQI----A-SPESIIVVNRIIFAFAKSRQIEKALLI  125 (287)
Q Consensus        71 ~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~~~~~~a~~~  125 (287)
                      +..+...+...|+                    +++|...+++..+.    + .+....++..+...|...|++++|...
T Consensus       130 ~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  209 (406)
T 3sf4_A          130 LYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIA  209 (406)
T ss_dssp             HHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHH
T ss_pred             HHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            7788888999999                    99999999887643    1 112345788899999999999999999


Q ss_pred             HHHHhcCCC-CCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhcCchHHHHHH
Q 023133          126 FDHIKGLKC-KPD----LITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD----FISYNTLLNNLRKIRRLDLCLIY  195 (287)
Q Consensus       126 ~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~  195 (287)
                      +++..+... .++    ..++..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...
T Consensus       210 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  289 (406)
T 3sf4_A          210 HEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDY  289 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHH
Confidence            988764310 111    237888899999999999999999987643111 11    45778889999999999999999


Q ss_pred             HHHHhhC----CCcC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-cchHhHHHHHHHHHhcCCh
Q 023133          196 FREMGES----GIKP-DLLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QIR-PSIYVYRSLIDNLKKMGKV  259 (287)
Q Consensus       196 ~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~li~~~~~~g~~  259 (287)
                      +++..+.    +..+ ...++..+...|...|++++|.+.+++..+.    +.. ....++..+...+...|+.
T Consensus       290 ~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          290 HLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHh
Confidence            9988653    1111 1457888899999999999999999987643    212 2245677777788777765

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.61  E-value=7.3e-13  Score=101.44  Aligned_cols=255  Identities=11%  Similarity=0.019  Sum_probs=182.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      |+-..-.|++..++.-...   ..+..+ .....+.+++...|++....         ...|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~---~~~~~~~~~~~~~~Rs~iAlg~~~~~~---------~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEK---FSKVTDNTLLFYKAKTLLALGQYQSQD---------PTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHT---SSCCCCHHHHHHHHHHHHHTTCCCCCC---------SSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHh---cCccchHHHHHHHHHHHHHcCCCccCC---------CCCHHHHHHHHHHHHh-ccc--
Confidence            3445567888888874333   233333 45555678888888877421         2334444444444333 322  


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC-KPDLITYNIVLDILGRVGRVNDMLNEFAS  163 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  163 (287)
                        +...+++..+.+ +++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.++.
T Consensus        85 --a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~  161 (310)
T 3mv2_B           85 --NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDN  161 (310)
T ss_dssp             --CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              678888887765 45566667889999999999999999999876642 13566788899999999999999999999


Q ss_pred             HHHcCCCC-----ChhHHHHHHHHHHh--cC--chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          164 MKEAGVVP-----DFISYNTLLNNLRK--IR--RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       164 ~~~~~~~~-----~~~~~~~l~~~~~~--~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      |.+.  .|     +..+...+..++..  .|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+
T Consensus       162 ~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          162 YTNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9876  45     35666666666333  34  899999999999776  466444445555899999999999999977


Q ss_pred             HhC-----C----CCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhhHhh
Q 023133          235 KQQ-----Q----IRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKDFKR  284 (287)
Q Consensus       235 ~~~-----~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  284 (287)
                      .+.     +    -+.+..+...+|......|+  +|.++++++.+..|+.|-...+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d~~~  294 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKHHQE  294 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHHHHH
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHHHHH
Confidence            652     1    13466777677777677787  899999999999999887655543

>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=99.61  E-value=2.2e-13  Score=97.79  Aligned_cols=164  Identities=12%  Similarity=0.158  Sum_probs=100.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            345555666666666666666666655432 2345555666666666666666666666666554 34555666666666


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+... .+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRP-NEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCHHHHH
Confidence            66666666666666665542 33455566666666666777777777666655532 24556666666666677777777


Q ss_pred             HHHHHHhh
Q 023133          194 IYFREMGE  201 (287)
Q Consensus       194 ~~~~~~~~  201 (287)
                      ..++++.+
T Consensus       165 ~~~~~~~~  172 (186)
T 3as5_A          165 PHFKKANE  172 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            76666654

>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=99.60  E-value=2e-12  Score=115.34  Aligned_cols=210  Identities=12%  Similarity=0.082  Sum_probs=108.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .+|..+..++...|++++|++.|.+.      -+...|..++.++.+.|++++|.+++....+..  ++..+.+.++.+|
T Consensus      1106 ~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaY 1177 (1630)
T 1xi4_A         1106 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL 1177 (1630)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHH
Confidence            34555555555555555555555332      234444445555555555555555555444433  1111222344455


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      ++.+++++...+.    +   .++...|..+...|...|++++|..+|...         ..|..+...+++.|++++|.
T Consensus      1178 AKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AI 1241 (1630)
T 1xi4_A         1178 AKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAV 1241 (1630)
T ss_pred             HhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHH
Confidence            5555544322221    1   233344444555555555555555555542         24555555555555555555


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      +.+++..      +..+|..+..+|...|++..|......     +..+...+..++..|.+.|.+++|+.+++......
T Consensus      1242 EaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le 1310 (1630)
T 1xi4_A         1242 DGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE 1310 (1630)
T ss_pred             HHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Confidence            5555431      334444444455555555444444332     22345566678888888899999999988887776


Q ss_pred             CCCCC
Q 023133          274 SDLAG  278 (287)
Q Consensus       274 ~~~~~  278 (287)
                      +...+
T Consensus      1311 raH~g 1315 (1630)
T 1xi4_A         1311 RAHMG 1315 (1630)
T ss_pred             hhHhH
Confidence            55443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.59  E-value=1.3e-12  Score=109.92  Aligned_cols=220  Identities=10%  Similarity=0.053  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHhc-------cCChH-------HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc
Q 023133           51 LSFQILKDLLVSSRTLSSDCYTNFARAFIM-------TDDCT-------QLLIFIEEVVQIASPESIIVVNRIIFAFAKS  116 (287)
Q Consensus        51 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  116 (287)
                      ++..+|++.+... +.+...|..++..+.+       .|+++       +|..++++.++.-.|.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            5667788887652 4467788888877775       68887       8999999998733356788999999999999


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCH--hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhcCchHHHH
Q 023133          117 RQIEKALLIFDHIKGLKCKPDL--ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-LRKIRRLDLCL  193 (287)
Q Consensus       117 ~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  193 (287)
                      |++++|..+|+++.+.  .|+.  ..|...+..+.+.|++++|..+|++..+.... +...|...... +...|+.++|.
T Consensus       335 g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             TCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCC-chHHHHHHHHHHHHHcCChhHHH
Confidence            9999999999999886  4542  47888999999999999999999999876322 33333332222 34689999999


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCcc--hHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ-IRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEMN  270 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  270 (287)
                      .+|++..+.. +.+...|..++..+.+.|+.++|..+|++....+ ..|+  ...|...+......|+.+.+..+++++.
T Consensus       412 ~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          412 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999998763 3467889999999999999999999999999763 2332  4478888888888999999999999998


Q ss_pred             hcCCC
Q 023133          271 SSLSD  275 (287)
Q Consensus       271 ~~~~~  275 (287)
                      +..|+
T Consensus       491 ~~~p~  495 (530)
T 2ooe_A          491 TAFRE  495 (530)
T ss_dssp             HHTHH
T ss_pred             HHCch
Confidence            88884

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.58  E-value=5.9e-14  Score=110.42  Aligned_cols=240  Identities=9%  Similarity=0.056  Sum_probs=183.0

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHhc----CC-CCcHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQI----AS-PESIIV  105 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~  105 (287)
                      .+......+...|++++|...+++..+... .+    ...+..+...+...|++++|...+++..+.    +. +....+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            455667788999999999999999998642 23    356778889999999999999999987643    21 223567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCC----HhhHHHHHHHHHhcCC--------------------HHHHHHH
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKGLKC-KPD----LITYNIVLDILGRVGR--------------------VNDMLNE  160 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~  160 (287)
                      +..+...|...|++++|...+++..+... .++    ..++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            88899999999999999999988754210 112    3377888899999999                    9999999


Q ss_pred             HHHHHHc----CCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCC-cCC----HHHHHHHHHHHHhcCCHHHHHHH
Q 023133          161 FASMKEA----GVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGI-KPD----LLTYTALIDSFGRTGNIEESLRL  230 (287)
Q Consensus       161 ~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~g~~~~a~~~  230 (287)
                      +++..+.    +..| ...++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  245 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  245 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9886432    1111 234678888899999999999999998864310 112    23778888999999999999999


Q ss_pred             HHHHHhC----CCCc-chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          231 FNDMKQQ----QIRP-SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       231 ~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      +++..+.    +..+ ...++..+...+...|++++|...++++....+.
T Consensus       246 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  295 (338)
T 3ro2_A          246 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQE  295 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHh
Confidence            9988743    1111 1557788889999999999999999998766543

>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=99.58  E-value=1.1e-13  Score=119.37  Aligned_cols=163  Identities=9%  Similarity=0.072  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      ..++.+..++.+.|++++|++.|++.++.. +.+..+++.+..+|.+.|++++|++.|++..+.. +-+...|..+..+|
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l   87 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344445555555555555555555554443 3334445555555555555555555555444432 12233444444555


Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          149 GRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      .+.|++++|++.|++..+.... +...|..+..++...|++++|.+.|++..+.. +-+...+..+..++...|++++|.
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHHH
Confidence            5555555555555544443221 33444444444444444444444444444432 122334444444444444444444


Q ss_pred             HHHHHHH
Q 023133          229 RLFNDMK  235 (287)
Q Consensus       229 ~~~~~~~  235 (287)
                      +.++++.
T Consensus       166 ~~~~kal  172 (723)
T 4gyw_A          166 ERMKKLV  172 (723)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444443

>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=99.58  E-value=3.2e-13  Score=116.46  Aligned_cols=164  Identities=10%  Similarity=0.093  Sum_probs=139.4

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      .+|+.+...+.+.|++++|++.|++.++.. +-+..++..+..++.+.|++++|++.|++.++.. +.+..+|..+..+|
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l   87 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            788999999999999999999999988763 3357788889999999999999999999998886 56788899999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL  193 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  193 (287)
                      .+.|++++|++.|++..+.. +-+...|+.+..+|.+.|++++|++.|++..+.... +...+..+...+...|++++|.
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHHH
Confidence            99999999999999887764 345678899999999999999999999998886543 5678888999999999999998


Q ss_pred             HHHHHHhh
Q 023133          194 IYFREMGE  201 (287)
Q Consensus       194 ~~~~~~~~  201 (287)
                      +.++++.+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88887754

>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=99.57  E-value=1.5e-13  Score=105.56  Aligned_cols=157  Identities=12%  Similarity=0.105  Sum_probs=108.3

Q ss_pred             HhcCChhHHHHHHHHHhhc-----CCC-Cc--hhHHHHHHHHhhcCChhHHHHHHHHHHHh------cC-CCCHHHHHHH
Q 023133           10 CKAGNVSAAVRLLQSLRDK-----NIF-LP--NAYNCVLVASAETNDIDLSFQILKDLLVS------SR-TLSSDCYTNF   74 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~-----~~~-~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l   74 (287)
                      ...|++++|+..|++..+.     +.. |.  .++..+...+...|++++|+..+++....      +. +....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567777777777766542     111 22  67888888888889999998888887754      11 2234567777


Q ss_pred             HHHHhccCChHHHHHHHHHHHhcC-------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC------CCCC-CHhh
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQIA-------SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL------KCKP-DLIT  140 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  140 (287)
                      ..++...|++++|...++++.+..       .+....++..+...|...|++++|...+++..+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            888888888888888888776541       1334567777888888888888888888776543      1112 2346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      +..+..+|...|++++|...+++..+
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            67777777788888888888777654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.57  E-value=1.3e-12  Score=105.13  Aligned_cols=234  Identities=12%  Similarity=0.047  Sum_probs=165.9

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC-----C-Cc
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSR-TLS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS-----P-ES  102 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~  102 (287)
                      ..+......+...|++++|+..+++...... .++    ..++..+...+...|+++.|...+++..+...     . ..
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            4677777778888888888888888875421 122    34667788888888898888888887765321     1 12


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH-----cCCCCC
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKE-----AGVVPD  172 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~  172 (287)
                      ..+++.+...|...|++++|.+.|++..+.    +..+ ...++..+..+|...|++++|...+++..+     .... .
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            457778888888899999998888776542    2111 234677888888889999999998888765     3322 3


Q ss_pred             hhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcc-hH
Q 023133          173 FISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPS-IY  244 (287)
Q Consensus       173 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~  244 (287)
                      ..++..+...+.+.|++++|...+++..+.    +-+.....+..+...+...++   +.+|+..+++.   +..|+ ..
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            667788888888999999999998887653    112223456666667777777   67777776652   23333 34


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      .+..+...|...|++++|...|+++..
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            667788888899999999999888754

>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=99.56  E-value=2.5e-13  Score=104.24  Aligned_cols=228  Identities=12%  Similarity=0.080  Sum_probs=158.8

Q ss_pred             hhcCChhHHHHHHHHHHHh-------cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhc------C-CCCcHHHHHHH
Q 023133           44 AETNDIDLSFQILKDLLVS-------SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQI------A-SPESIIVVNRI  109 (287)
Q Consensus        44 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-~~~~~~~~~~l  109 (287)
                      ...|+++.|+..+++.++.       ..+....++..+...+...|++++|...++++.+.      + .+....++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567788888887777652       11224567888889999999999999999998765      2 23456788999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHhcC------CC-CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc------CCCC-ChhH
Q 023133          110 IFAFAKSRQIEKALLIFDHIKGL------KC-KPDLITYNIVLDILGRVGRVNDMLNEFASMKEA------GVVP-DFIS  175 (287)
Q Consensus       110 ~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~~~-~~~~  175 (287)
                      ...|...|++++|...+++..+.      .. +....++..+...|...|++++|...+++..+.      +..| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988653      11 223557888999999999999999999998764      1122 3467


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhC-------CCcCCH-HHHHHHHHHHHhcCC------HHHHHHHHHHHHhCCCCc
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGES-------GIKPDL-LTYTALIDSFGRTGN------IEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~-~~~~~l~~~~~~~g~------~~~a~~~~~~~~~~~~~~  241 (287)
                      +..+...+...|++++|..++++..+.       ...+.. ..+..+...+...+.      +..+...++.... ..+.
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            888899999999999999999988753       112222 233333333333333      2222222222211 1123


Q ss_pred             chHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          242 SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      ...++..+...+...|++++|..+|+++.+.
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567888999999999999999999998764

>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=99.55  E-value=2.9e-12  Score=95.47  Aligned_cols=192  Identities=6%  Similarity=-0.013  Sum_probs=153.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+......+...|++++|+..|++.++...+++...+..+..++...|++++|...+++..+.. +.+..++..+...|
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   86 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAY   86 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHH
Confidence            68888999999999999999999999987654788888889999999999999999999999876 56788999999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCH-------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---hhHHHHHHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDL-------ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPD---FISYNTLLNNL  183 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~  183 (287)
                      ...|++++|...+++..+.. +.+.       ..|..+...+...|++++|...|++..+.  .|+   ...+..+...+
T Consensus        87 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           87 RDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHH
Confidence            99999999999999998763 2334       45778888899999999999999999875  354   46677777777


Q ss_pred             HhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          184 RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       184 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ...|     ..+++++...+ ..+...|....  ....+.+++|...+++..+.
T Consensus       164 ~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          164 YNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc
Confidence            6444     44556665543 33445554443  33456789999999999875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.55  E-value=1.6e-12  Score=104.60  Aligned_cols=228  Identities=10%  Similarity=-0.015  Sum_probs=166.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCC----CCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-C-----CHHHHH
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNI----FLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-L-----SSDCYT   72 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~----~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~-----~~~~~~   72 (287)
                      ....+...|++++|+..|++......    .+.  .++..+...+...|+++.|+..+++..+.... +     ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34456788999999999998765421    112  57888899999999999999999888754211 1     134677


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhcC----CC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCCCCCHhhHH
Q 023133           73 NFARAFIMTDDCTQLLIFIEEVVQIA----SP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKG-----LKCKPDLITYN  142 (287)
Q Consensus        73 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  142 (287)
                      .+..++...|++++|...+++..+..    .+ ....++..+...|...|++++|...+++..+     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            78888999999999999998876531    11 2245778888999999999999999988865     32 23356778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCC----CCChhHHHHHHHHHHhcCc---hHHHHHHHHHHhhCCCcCC-HHHHHHH
Q 023133          143 IVLDILGRVGRVNDMLNEFASMKEAGV----VPDFISYNTLLNNLRKIRR---LDLCLIYFREMGESGIKPD-LLTYTAL  214 (287)
Q Consensus       143 ~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l  214 (287)
                      .+..++.+.|++++|...+++..+...    +.....+..+...+...++   ..+|..++++.   +..|+ ...+..+
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~l  342 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHH
Confidence            888899999999999999998876422    1123345556666777777   67777777652   22333 3466678


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 023133          215 IDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       215 ~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ...|...|++++|.+.|++..+
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8899999999999999998764

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.53  E-value=9.1e-13  Score=102.16  Aligned_cols=237  Identities=8%  Similarity=-0.027  Sum_probs=155.6

Q ss_pred             HHHHHHHHHhhcCCCCchhHHHHHHHHhh--cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 023133           17 AAVRLLQSLRDKNIFLPNAYNCVLVASAE--TNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEV   94 (287)
Q Consensus        17 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   94 (287)
                      +|.+++.+..+.-......| .+   +..  .+++++|...|++.               ...+...|++++|...|++.
T Consensus         3 ~a~~~~~~a~k~~~~~~~~~-~~---~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~a   63 (292)
T 1qqe_A            3 DPVELLKRAEKKGVPSSGFM-KL---FSGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKA   63 (292)
T ss_dssp             CHHHHHHHHHHHSSCCCTHH-HH---HSCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhCcCCCcc-hh---cCCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHH
Confidence            56666666665543222222 22   222  12477888777776               33566778888888888877


Q ss_pred             Hhc----CCCC-cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC---CCC--HhhHHHHHHHHHhc-CCHHHHHHHHHH
Q 023133           95 VQI----ASPE-SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC---KPD--LITYNIVLDILGRV-GRVNDMLNEFAS  163 (287)
Q Consensus        95 ~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~-~~~~~a~~~~~~  163 (287)
                      .+.    +.++ ...+|+.+..+|.+.|++++|+..+++..+...   .+.  ..+++.+..+|... |++++|+..|++
T Consensus        64 l~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~  143 (292)
T 1qqe_A           64 ADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYEL  143 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            654    2122 256788888888899999999888887754310   111  34677888888885 999999999888


Q ss_pred             HHHcCCCC-C----hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH------HHHHHHHHHHHhcCCHHHHHHHHH
Q 023133          164 MKEAGVVP-D----FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL------LTYTALIDSFGRTGNIEESLRLFN  232 (287)
Q Consensus       164 ~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~  232 (287)
                      ..+..... +    ..++..+...+.+.|++++|...|++..+.......      ..|..+..++...|++++|...|+
T Consensus       144 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~  223 (292)
T 1qqe_A          144 AGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQ  223 (292)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            76532110 1    346778888889999999999999988875322211      156677788888999999999999


Q ss_pred             HHHhCCCCcch------HhHHHHHHHHH--hcCChHHHHHHHHHHhhcCC
Q 023133          233 DMKQQQIRPSI------YVYRSLIDNLK--KMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       233 ~~~~~~~~~~~------~~~~~li~~~~--~~g~~~~a~~~~~~~~~~~~  274 (287)
                      +..+.  .|+.      ..+..++.++.  ..+++++|+..|+++....|
T Consensus       224 ~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          224 EGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (292)
T ss_dssp             GGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHH
Confidence            88753  3332      12344555554  45678888888877765544

>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=99.51  E-value=2.9e-11  Score=108.09  Aligned_cols=234  Identities=13%  Similarity=0.124  Sum_probs=182.4

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      +|..+..++...|++++|++.|.+.     ..+..|..++.++.+.|++++|++.|...++..  +++...+.++.+|++
T Consensus      1107 vWsqLAKAql~~G~~kEAIdsYiKA-----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAK 1179 (1630)
T 1xi4_A         1107 VWSQLAKAQLQKGMVKEAIDSYIKA-----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAK 1179 (1630)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHh
Confidence            4788999999999999999999764     122589999999999999999999999887754  333333458899999


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .++++....+.    +   .++...|..+...|...|++++|...|...         ..|..+..++.+.|++++|.+.
T Consensus      1180 l~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEa 1243 (1630)
T 1xi4_A         1180 TNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG 1243 (1630)
T ss_pred             hcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHH
Confidence            99988644442    2   345567778999999999999999999985         3899999999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  240 (287)
                      +++.      .+..+|..+..+|...|++..|......+     ..+...+..++..|.+.|.+++|+.+++...... +
T Consensus      1244 arKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-r 1311 (1630)
T 1xi4_A         1244 ARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-R 1311 (1630)
T ss_pred             HHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-h
Confidence            9876      26689999999999999999998876643     3455667789999999999999999998887543 3


Q ss_pred             cchHhHHHHHHHHHhc--CChHHHHHHHHHH
Q 023133          241 PSIYVYRSLIDNLKKM--GKVDLAMTIFEEM  269 (287)
Q Consensus       241 ~~~~~~~~li~~~~~~--g~~~~a~~~~~~~  269 (287)
                      -....|.-+...+++.  ++..++.++|..-
T Consensus      1312 aH~gmftELaiLyaKy~peklmEhlk~f~~r 1342 (1630)
T 1xi4_A         1312 AHMGMFTELAILYSKFKPQKMREHLELFWSR 1342 (1630)
T ss_pred             hHhHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            3444565555555543  4455555555543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.51  E-value=3.1e-11  Score=99.30  Aligned_cols=191  Identities=10%  Similarity=0.045  Sum_probs=128.0

Q ss_pred             CHHHHHHHHHHHhccC---ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc----CCHHHHHHHHHHHhcCCCCCCHh
Q 023133           67 SSDCYTNFARAFIMTD---DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS----RQIEKALLIFDHIKGLKCKPDLI  139 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~  139 (287)
                      ++..+..+...+...|   +.++|.+.|++..+.| +++...+..+...|...    +++++|...|++.. .   -+..
T Consensus       175 ~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~  249 (452)
T 3e4b_A          175 TDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPA  249 (452)
T ss_dssp             CTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTH
T ss_pred             CHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHH
Confidence            3346666777777777   7778888888887777 45555556666666554    57888888888776 2   3444


Q ss_pred             hHHHHHHH-H--HhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC-----chHHHHHHHHHHhhCCCcCCHHHH
Q 023133          140 TYNIVLDI-L--GRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR-----RLDLCLIYFREMGESGIKPDLLTY  211 (287)
Q Consensus       140 ~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~  211 (287)
                      .+..+... +  ...+++++|...|++..+.|   +...+..+...|. .|     ++++|...|++.. .|   +...+
T Consensus       250 a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~  321 (452)
T 3e4b_A          250 SWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAAD  321 (452)
T ss_dssp             HHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHH
T ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHH
Confidence            55555555 3  45778888888888877765   5566666666666 44     7888888887776 33   55566


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh----cCChHHHHHHHHHHhhcC
Q 023133          212 TALIDSFGR----TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK----MGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       212 ~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  273 (287)
                      ..|...|..    ..++++|.++|++..+.|   +......|...|..    ..+.++|..+|+......
T Consensus       322 ~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          322 YYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             HHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCC
Confidence            666666665    347888888888887765   33444455555543    347778888887775544

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=3e-11  Score=99.38  Aligned_cols=157  Identities=10%  Similarity=0.038  Sum_probs=122.3

Q ss_pred             HHHHHHHHHHHHhcC---CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc----CCHHHHHHHHHHHHHcCCCCChhH
Q 023133          103 IIVVNRIIFAFAKSR---QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV----GRVNDMLNEFASMKEAGVVPDFIS  175 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~  175 (287)
                      +..+..+...|.+.|   +.++|++.|++..+.| +++...+..+...|...    +++++|...|+... .|   +...
T Consensus       176 ~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a  250 (452)
T 3e4b_A          176 DICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPAS  250 (452)
T ss_dssp             TTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHH
T ss_pred             HHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHH
Confidence            337788888898899   8999999999998887 45666656777777654    68999999999987 43   4566


Q ss_pred             HHHHHHH-H--HhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHhCCCCcchHhHH
Q 023133          176 YNTLLNN-L--RKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTG-----NIEESLRLFNDMKQQQIRPSIYVYR  247 (287)
Q Consensus       176 ~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~  247 (287)
                      +..+... +  ...+++++|.+.|++..+.|   +...+..|...|. .|     ++++|.++|++.. .|   +...+.
T Consensus       251 ~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~  322 (452)
T 3e4b_A          251 WVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADY  322 (452)
T ss_dssp             HHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHH
T ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHH
Confidence            6666666 4  56889999999999998876   6667777877777 45     9999999999887 43   566677


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHhhc
Q 023133          248 SLIDNLKK----MGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       248 ~li~~~~~----~g~~~~a~~~~~~~~~~  272 (287)
                      .+...|..    ..++++|..+|++..+.
T Consensus       323 ~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  351 (452)
T 3e4b_A          323 YLGQIYRRGYLGKVYPQKALDHLLTAARN  351 (452)
T ss_dssp             HHHHHHHTTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCCCCcCHHHHHHHHHHHHhh
Confidence            77777765    34899999999998664

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.48  E-value=5.6e-11  Score=95.28  Aligned_cols=240  Identities=11%  Similarity=0.016  Sum_probs=172.2

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH----HHHHHHHHHhccCChHHHHHHHHHHHhcCC---CC--cHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD----CYTNFARAFIMTDDCTQLLIFIEEVVQIAS---PE--SIIV  105 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~  105 (287)
                      ........+...|++++|...+++........+..    .+..+...+...|++++|...+++..+...   .+  ...+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            34455567778999999999999988764222322    455667788889999999999998865421   11  1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcC----CCC--CC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--C--Chh
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKGL----KCK--PD-LITYNIVLDILGRVGRVNDMLNEFASMKEAGVV--P--DFI  174 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~--~~~  174 (287)
                      +..+...+...|++++|...+++..+.    +..  |. ...+..+...+...|++++|...+++..+....  +  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            677888899999999999999887542    221  22 345667888899999999999999998764322  1  235


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC--HHHHH----HHHHHHHhcCCHHHHHHHHHHHHhCCCCc---chHh
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD--LLTYT----ALIDSFGRTGNIEESLRLFNDMKQQQIRP---SIYV  245 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~  245 (287)
                      ++..+...+...|++++|...+++.......++  .....    ..+..+...|++++|...+++..+....+   ....
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            677788889999999999999998864311111  11111    23345779999999999999887643211   1234


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          246 YRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                      +..+...+...|++++|...++++....+
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~  284 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENAR  284 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            66778889999999999999999866543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.46  E-value=1.4e-11  Score=93.80  Aligned_cols=192  Identities=8%  Similarity=-0.030  Sum_probs=121.0

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc---HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CC-CHhhH
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPES---IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC-KP-DLITY  141 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~-~~~~~  141 (287)
                      +...+..+...+.+.|++++|...|+++++.. |.+   ..++..+..+|.+.|++++|...|++..+... .| ....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            45556666677777777777777777777664 223   55666777777777777777777777765421 11 13345


Q ss_pred             HHHHHHHHh--------cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHH
Q 023133          142 NIVLDILGR--------VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTA  213 (287)
Q Consensus       142 ~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  213 (287)
                      ..+..++..        .|++++|...|+++.+.... +......+...              ..+...    ....+..
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~~--------------~~~~~~----~~~~~~~  153 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPN-HELVDDATQKI--------------RELRAK----LARKQYE  153 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTT-CTTHHHHHHHH--------------HHHHHH----HHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcC-chhHHHHHHHH--------------HHHHHH----HHHHHHH
Confidence            566666666        77777777777777665321 11222111110              000000    0012456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC--cchHhHHHHHHHHHhc----------CChHHHHHHHHHHhhcCCCCCC
Q 023133          214 LIDSFGRTGNIEESLRLFNDMKQQQIR--PSIYVYRSLIDNLKKM----------GKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       214 l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      +...|...|++++|+..|+++.+....  .....+..+..++...          |++++|...|+++.+..|+.+.
T Consensus       154 la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          154 AARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            777888899999999999998865211  1245667777777765          8889999999999988887764

>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=99.45  E-value=1.5e-11  Score=83.18  Aligned_cols=132  Identities=13%  Similarity=0.160  Sum_probs=81.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      |..+...+...|++++|..+++++.+.+.. +...+..+...+...|++++|..+++++.+.+ +.+...+..+...+..
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            445555566666666666666666554322 44555556666666666666666666665543 3345556666666777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          221 TGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .|++++|.++++++.+.. +.+...+..+...+...|++++|.+.++++....|+
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            777777777777766542 234556666677777777777777777777665553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.44  E-value=3.5e-11  Score=93.20  Aligned_cols=212  Identities=9%  Similarity=0.038  Sum_probs=157.5

Q ss_pred             ChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHh----cCCCC-HHHHHHHHHHHhccCChHHHH
Q 023133           14 NVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVS----SRTLS-SDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus        14 ~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      ++++|...|++.              ...|...|++++|...|.+....    |.++. ..+|+.+..++...|++++|+
T Consensus        32 ~~~~A~~~~~~a--------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~   97 (292)
T 1qqe_A           32 KFEEAADLCVQA--------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAV   97 (292)
T ss_dssp             HHHHHHHHHHHH--------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cHHHHHHHHHHH--------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            488888887776              44677889999999999988654    21222 468888999999999999999


Q ss_pred             HHHHHHHhcCC---CC--cHHHHHHHHHHHHhc-CCHHHHHHHHHHHhcCCC---CC-C-HhhHHHHHHHHHhcCCHHHH
Q 023133           89 IFIEEVVQIAS---PE--SIIVVNRIIFAFAKS-RQIEKALLIFDHIKGLKC---KP-D-LITYNIVLDILGRVGRVNDM  157 (287)
Q Consensus        89 ~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~---~~-~-~~~~~~l~~~~~~~~~~~~a  157 (287)
                      ..+++.++...   .+  ...+++.+...|... |++++|+..|++..+...   .+ . ..+++.+...+.+.|++++|
T Consensus        98 ~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A  177 (292)
T 1qqe_A           98 DSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEA  177 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHH
Confidence            99998876431   11  146888999999996 999999999998865310   01 1 34688899999999999999


Q ss_pred             HHHHHHHHHcCCCCChh------HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCH------HHHHHHHHHHH--hcCC
Q 023133          158 LNEFASMKEAGVVPDFI------SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDL------LTYTALIDSFG--RTGN  223 (287)
Q Consensus       158 ~~~~~~~~~~~~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~l~~~~~--~~g~  223 (287)
                      +..|++..+........      .|..+..++...|++++|...+++..+.  .|+.      ..+..++.++.  ..++
T Consensus       178 ~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          178 SDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHH
Confidence            99999998865432221      5677888899999999999999998864  3332      13445666665  4577


Q ss_pred             HHHHHHHHHHHHhCCCCcch
Q 023133          224 IEESLRLFNDMKQQQIRPSI  243 (287)
Q Consensus       224 ~~~a~~~~~~~~~~~~~~~~  243 (287)
                      +++|++.|+.+.+  +.|+.
T Consensus       256 ~~~A~~~~~~~~~--l~~~~  273 (292)
T 1qqe_A          256 LSEHCKEFDNFMR--LDKWK  273 (292)
T ss_dssp             HHHHHHHHTTSSC--CCHHH
T ss_pred             HHHHHHHhccCCc--cHHHH
Confidence            9999999987765  34444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.42  E-value=3e-11  Score=91.98  Aligned_cols=189  Identities=12%  Similarity=0.062  Sum_probs=125.6

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC--CCcHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS---SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS--PESIIVVNR  108 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~  108 (287)
                      ..+..+...+.+.|++++|+..|+++++... .+   ...+..+..++...|++++|...|+++++..+  +....++..
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            5666667777777777777777777766431 12   45666677777777777777777777776532  122455666


Q ss_pred             HHHHHHh--------cCCHHHHHHHHHHHhcCCCCCC-HhhH-----------------HHHHHHHHhcCCHHHHHHHHH
Q 023133          109 IIFAFAK--------SRQIEKALLIFDHIKGLKCKPD-LITY-----------------NIVLDILGRVGRVNDMLNEFA  162 (287)
Q Consensus       109 l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~-~~~~-----------------~~l~~~~~~~~~~~~a~~~~~  162 (287)
                      +..++..        .|++++|...|+++.+..  |+ ....                 ..+...|.+.|++++|+..|+
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  172 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYE  172 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            6777777        777777777777776542  32 2222                 456778888999999999999


Q ss_pred             HHHHcCCCC--ChhHHHHHHHHHHhc----------CchHHHHHHHHHHhhCCCcCCH----HHHHHHHHHHHhcCCHHH
Q 023133          163 SMKEAGVVP--DFISYNTLLNNLRKI----------RRLDLCLIYFREMGESGIKPDL----LTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       163 ~~~~~~~~~--~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~  226 (287)
                      .+.+.....  ....+..+..+|...          |++++|...++++.+.  .|+.    .....+...+...+++++
T Consensus       173 ~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          173 AVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDSPLLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            887754321  234667777777766          8888999999888875  2332    345555556665555554


Q ss_pred             H
Q 023133          227 S  227 (287)
Q Consensus       227 a  227 (287)
                      +
T Consensus       251 ~  251 (261)
T 3qky_A          251 D  251 (261)
T ss_dssp             C
T ss_pred             h
Confidence            4

>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=99.41  E-value=2.7e-11  Score=81.94  Aligned_cols=130  Identities=13%  Similarity=0.185  Sum_probs=77.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      +|..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            34555556666666666666666665542 2244555555666666666666666666665554 344555666666666


Q ss_pred             hcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          115 KSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      ..|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            6666666666666665542 234555666666666666777776666666554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.40  E-value=1.7e-11  Score=90.04  Aligned_cols=163  Identities=11%  Similarity=0.051  Sum_probs=85.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHH----------------HHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNR----------------IIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      ..+......+...|++++|...|++..+.. |.+...|..                +..+|.+.|++++|...|++..+.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            334445556677888888888888887765 334455555                555566666666666666555544


Q ss_pred             CCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc--hHHHHHHHHHHhhCCCcCCHHH
Q 023133          133 KCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR--LDLCLIYFREMGESGIKPDLLT  210 (287)
Q Consensus       133 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~  210 (287)
                      . +.+...+..+..++...|++++|...|++..+.... +..++..+...|...|.  .+.+...+......  .|....
T Consensus        84 ~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~a  159 (208)
T 3urz_A           84 A-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSSP--TKMQYA  159 (208)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---CC--CHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCC--CchhHH
Confidence            2 224445555555666666666666666665554322 34455555555443332  22333333333211  111122


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +..+..++...|++++|...|++..+
T Consensus       160 ~~~~g~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          160 RYRDGLSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            22333344445555566666655554

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.40  E-value=6.1e-11  Score=87.07  Aligned_cols=170  Identities=11%  Similarity=0.057  Sum_probs=99.7

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHH----------------HHHHHhccCChHHHHHHHHHHHhcCC
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTN----------------FARAFIMTDDCTQLLIFIEEVVQIAS   99 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~~   99 (287)
                      +......+.+.|++++|+..|++.+... +-+...+..                +..++...|++++|...+++.++.. 
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   84 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-   84 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-
Confidence            3444455667777777777777776542 113344555                6666777777777777777777665 


Q ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC--HHHHHHHHHHHHHcCCCCChhHHH
Q 023133          100 PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR--VNDMLNEFASMKEAGVVPDFISYN  177 (287)
Q Consensus       100 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~  177 (287)
                      |.+...+..+...|...|++++|...|++..+.. +.+..++..+..+|...|+  .+.+...+.....  ..|....+.
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~  161 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARY  161 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHH
Confidence            4566677777777777777777777777776653 2345566666666654443  2334444444321  122222333


Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHH
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYT  212 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  212 (287)
                      ....++...|++++|...|++..+.  .|+.....
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~  194 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHH
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            3444555667777777777777665  46654433

>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=99.40  E-value=2.7e-11  Score=104.70  Aligned_cols=173  Identities=9%  Similarity=-0.040  Sum_probs=141.2

Q ss_pred             hccCChHHHHHHHHHHH--------hcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           79 IMTDDCTQLLIFIEEVV--------QIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      ...|++++|++.+++..        +.. +.+...+..+...|...|++++|...|++..+.. +.+...|..+..++..
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            77899999999999988        443 5667888889999999999999999999988764 3466788889999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHH
Q 023133          151 VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRL  230 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  230 (287)
                      .|++++|...|++..+.... +...|..+..++.+.|++++ .+.|++..+.+ +.+...|..+..++.+.|++++|.+.
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            99999999999999887543 66788889999999999999 99999998764 44677889999999999999999999


Q ss_pred             HHHHHhCCCCcc-hHhHHHHHHHHHhcCC
Q 023133          231 FNDMKQQQIRPS-IYVYRSLIDNLKKMGK  258 (287)
Q Consensus       231 ~~~~~~~~~~~~-~~~~~~li~~~~~~g~  258 (287)
                      |++..+.  .|+ ...+..+..++...|+
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            9998875  454 5667777777766554

>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=99.39  E-value=1.7e-11  Score=105.88  Aligned_cols=174  Identities=10%  Similarity=-0.054  Sum_probs=137.4

Q ss_pred             HhcCChhHHHHHHHHHh--------hcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133           10 CKAGNVSAAVRLLQSLR--------DKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~--------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      ...|++++|++.|++..        +.++.....+..+..++.+.|++++|++.|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            57889999999999887        5444444788888999999999999999999988763 34677888888889999


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      |++++|...|+++.+.. +.+...+..+..+|.+.|++++ .+.|++..+.. +.+...|..+..++.+.|++++|...|
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999998886 5677888889999999999999 99998887764 345678888899999999999999999


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCc
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRR  188 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~  188 (287)
                      ++..+.+.. +...+..+..++...++
T Consensus       558 ~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            988775422 35667777777665444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.37  E-value=2e-10  Score=85.43  Aligned_cols=190  Identities=10%  Similarity=0.030  Sum_probs=122.7

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCC--cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh----h
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPE--SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI----T  140 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~  140 (287)
                      +...+..+...+...|++++|...|+++.+..+..  ....+..+..+|.+.|++++|+..|+++.+..  |+..    .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            34455566777888888999999988888764221  23567778888888889999988888887652  3322    3


Q ss_pred             HHHHHHHHHh------------------cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          141 YNIVLDILGR------------------VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       141 ~~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                      +..+..++..                  .|++++|...|+++.+.... +...+......    +      .+...+   
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----~------~~~~~~---  146 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----V------FLKDRL---  146 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----H------HHHHHH---
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----H------HHHHHH---
Confidence            4444444443                  34555555555555543211 11111111000    0      000000   


Q ss_pred             CCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc----hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          203 GIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS----IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       203 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                           ......+...|.+.|++++|+..|+++.+.  .|+    ...+..+..++.+.|++++|.+.++.+....|+...
T Consensus       147 -----~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          147 -----AKYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             -----HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             -----HHHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence                 001134567788999999999999999875  233    256888899999999999999999999998887654


Q ss_pred             h
Q 023133          279 P  279 (287)
Q Consensus       279 ~  279 (287)
                      .
T Consensus       220 ~  220 (225)
T 2yhc_A          220 H  220 (225)
T ss_dssp             C
T ss_pred             h
Confidence            3

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.36  E-value=4.1e-10  Score=86.32  Aligned_cols=184  Identities=13%  Similarity=0.006  Sum_probs=138.4

Q ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCC-CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133           52 SFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS-PESIIVVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus        52 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      ++..+++....+ .++..++..+..++...|++++|++++.+.+..+. ..+...+..++..+.+.|+.+.|.+.+++|.
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            778888877654 56666677888999999999999999999887763 2577888899999999999999999999998


Q ss_pred             cCCCCC-----CHhhHHHHHHHH--Hh--cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          131 GLKCKP-----DLITYNIVLDIL--GR--VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       131 ~~~~~~-----~~~~~~~l~~~~--~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      +.  .|     +..+...+..++  ..  .+++++|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+
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            75  56     355555666553  33  34899999999998765  34533444455589999999999999997765


Q ss_pred             C-----C----CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchH
Q 023133          202 S-----G----IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIY  244 (287)
Q Consensus       202 ~-----~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  244 (287)
                      .     .    -+.|..+...++......|+  +|.++++++.+.  .|+..
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--~P~hp  287 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--DHEHA  287 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--TCCCH
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--CCCCh
Confidence            3     1    03355666566666666676  889999999985  45543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.36  E-value=3.2e-09  Score=82.01  Aligned_cols=216  Identities=9%  Similarity=0.023  Sum_probs=89.0

Q ss_pred             hHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC--ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHH----hcc---CChHH
Q 023133           16 SAAVRLLQSLRDKNIFLPNAYNCVLVASAETN--DIDLSFQILKDLLVSSRTLSSDCYTNFARAF----IMT---DDCTQ   86 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~~~~   86 (287)
                      ++|+.+++.+...++....+|+.-..++...+  +++++++.++.++..+.+ +..+|+.-...+    ...   +++++
T Consensus        50 ~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~~~~~~  128 (306)
T 3dra_A           50 ERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNNDFDPYR  128 (306)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTCCCTHH
T ss_pred             HHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccccCCHHH
Confidence            34555555555444433344444444444444  455555555555443211 222232222222    222   34444


Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH--HHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC------HHHHH
Q 023133           87 LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE--KALLIFDHIKGLKCKPDLITYNIVLDILGRVGR------VNDML  158 (287)
Q Consensus        87 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~~a~  158 (287)
                      ++.+++++.+.. +.+..+|+.-...+.+.|.++  ++++.++++.+.. +.+-..|+.-...+.+.+.      +++++
T Consensus       129 EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl  206 (306)
T 3dra_A          129 EFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEEL  206 (306)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhhHHHHH
Confidence            555555444443 334444444444444444444  4444444444432 2233344433333333333      44444


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHH-HHHHHHHHhhCC--CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDL-CLIYFREMGESG--IKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +.++.+....+. |...|+..-..+.+.|+... +..+..++.+.+  -..+...+..+...|.+.|+.++|.++++.+.
T Consensus       207 ~~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~  285 (306)
T 3dra_A          207 NYVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLK  285 (306)
T ss_dssp             HHHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            444444443332 44444444444444443222 223333333211  02233344444444444444444444444444

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.35  E-value=7.4e-11  Score=99.99  Aligned_cols=154  Identities=9%  Similarity=-0.057  Sum_probs=117.8

Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNE  160 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  160 (287)
                      .|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+..+|...|++++|.+.
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            478899999999998875 5668889999999999999999999999998874 34577889999999999999999999


Q ss_pred             HHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHhC
Q 023133          161 FASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT---GNIEESLRLFNDMKQQ  237 (287)
Q Consensus       161 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  237 (287)
                      +++..+.... +...+..+...+.+.|++++|.+.+++..+.. +.+...+..+..++...   |++++|.+.+++..+.
T Consensus        80 ~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            9999887533 67888999999999999999999999998764 44677888899999999   9999999999999876


Q ss_pred             C
Q 023133          238 Q  238 (287)
Q Consensus       238 ~  238 (287)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            3

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.35  E-value=2.1e-10  Score=85.31  Aligned_cols=181  Identities=13%  Similarity=0.053  Sum_probs=104.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc---hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCH--HHHHHHHHHH
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP---NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSS--DCYTNFARAF   78 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~   78 (287)
                      .+...+.+.|++++|+..|+++....+..+   .++..+..++.+.|++++|+..|+++++.......  ..+..+..++
T Consensus         9 ~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g~~~   88 (225)
T 2yhc_A            9 ATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRGLTN   88 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHHHHH
Confidence            345567777888888888887777655433   46777777777788888888888777765322111  1333333333


Q ss_pred             hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh-h-----------------
Q 023133           79 IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI-T-----------------  140 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~-----------------  140 (287)
                      ...+..     .+            ..+..+...+...|++++|...|+++.+.  .|+.. .                 
T Consensus        89 ~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l~~~~~~~~~~  149 (225)
T 2yhc_A           89 MALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRLVFLKDRLAKY  149 (225)
T ss_dssp             HHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             Hhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHHHHHHHHHHHH
Confidence            321100     00            00011111122234444455544444443  12211 1                 


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhhCC
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGESG  203 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  203 (287)
                      ...+...|.+.|++++|...|+.+.+......  ...+..+..++.+.|+.++|.+.++.+...+
T Consensus       150 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          150 EYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence            12456678888999999999999877642211  2467778888999999999999998887663

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.34  E-value=1.3e-10  Score=89.73  Aligned_cols=169  Identities=12%  Similarity=0.043  Sum_probs=136.4

Q ss_pred             CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHH-H
Q 023133           99 SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISY-N  177 (287)
Q Consensus        99 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~  177 (287)
                      .+.+...+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...++.+....  |+.... .
T Consensus       113 lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~  189 (287)
T 3qou_A          113 LPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGL  189 (287)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHH
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHH
Confidence            35667778888899999999999999999988763 3456788889999999999999999999987654  444332 2


Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-cchHhHHHHHHHHHhc
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR-PSIYVYRSLIDNLKKM  256 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~  256 (287)
                      .....+...++.++|...+++..+.. +.+...+..+...+...|++++|...|.++.+.... .+...+..++..+...
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence            23334667788888999999988764 556788999999999999999999999999976321 2267889999999999


Q ss_pred             CChHHHHHHHHHHhh
Q 023133          257 GKVDLAMTIFEEMNS  271 (287)
Q Consensus       257 g~~~~a~~~~~~~~~  271 (287)
                      |+.++|...|++...
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            999999999988754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.34  E-value=1.8e-09  Score=83.37  Aligned_cols=228  Identities=9%  Similarity=0.001  Sum_probs=180.1

Q ss_pred             hhcC-ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC--ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH----Hhc
Q 023133           44 AETN-DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD--DCTQLLIFIEEVVQIASPESIIVVNRIIFAF----AKS  116 (287)
Q Consensus        44 ~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~  116 (287)
                      .+.| ..++|+++.+.++..+ +-....|+.--.++...+  +++++++.++.++... |-+..+|+.-...+    ...
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l  120 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELN  120 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHT
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhc
Confidence            3444 4579999999999763 224566777777777788  9999999999999886 56677777666666    555


Q ss_pred             ---CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH--HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc---
Q 023133          117 ---RQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN--DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR---  188 (287)
Q Consensus       117 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  188 (287)
                         +++++++..++.+.+.. +.+-.+|+.-.-++.+.|.++  ++++.++.+.+.++. |...|+.-...+.+.+.   
T Consensus       121 ~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~  198 (306)
T 3dra_A          121 NNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLAT  198 (306)
T ss_dssp             TTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCC
T ss_pred             cccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccch
Confidence               78999999999998765 557788888888888888888  999999999998766 78888877777777776   


Q ss_pred             ---hHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHhCC--CCcchHhHHHHHHHHHhcCChHHH
Q 023133          189 ---LDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE-SLRLFNDMKQQQ--IRPSIYVYRSLIDNLKKMGKVDLA  262 (287)
Q Consensus       189 ---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a  262 (287)
                         ++++++.++++.... +-|...|+.+-..+.+.|+..+ +..+..++.+.+  -..+...+..++..+.+.|+.++|
T Consensus       199 ~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          199 DNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence               889999999988775 5688899988888888887444 556777666432  134677889999999999999999


Q ss_pred             HHHHHHHhh-cCCCC
Q 023133          263 MTIFEEMNS-SLSDL  276 (287)
Q Consensus       263 ~~~~~~~~~-~~~~~  276 (287)
                      .++++.+.+ ..|..
T Consensus       278 ~~~~~~l~~~~Dpir  292 (306)
T 3dra_A          278 RTVYDLLKSKYNPIR  292 (306)
T ss_dssp             HHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHhccChHH
Confidence            999999976 46643

>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=99.33  E-value=3.3e-11  Score=86.02  Aligned_cols=162  Identities=9%  Similarity=-0.006  Sum_probs=84.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHH-H
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFA-F  113 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  113 (287)
                      .+......+.+.|++++|+..+++..+.. +.+...+..+..++...|++++|...++++.+...  +...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p--~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ--DNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC--CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC--ChHHHHHHHHHHH
Confidence            44555555566666666666666554432 22445555555666666666666666665554432  33222221111 1


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-ChhHHHHHHHHHHhcCchHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVP-DFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      ...++..+|...+++..+.. +.+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|
T Consensus        85 ~~~~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HhhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            11122223455565555432 2235556666666666666666666666665543322 234556666666666666666


Q ss_pred             HHHHHHHh
Q 023133          193 LIYFREMG  200 (287)
Q Consensus       193 ~~~~~~~~  200 (287)
                      ...|++..
T Consensus       164 ~~~y~~al  171 (176)
T 2r5s_A          164 ASKYRRQL  171 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66666544

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.31  E-value=1.4e-11  Score=85.54  Aligned_cols=122  Identities=8%  Similarity=0.009  Sum_probs=60.2

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHH
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQL   87 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a   87 (287)
                      .+...|++++|+..+.......+..+..+..+...|.+.|++++|++.|++.++.. +-+..+|..+..++...|++++|
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            33444555555555555444332222344455555555555555555555555432 22344555555555555555555


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHH-HHHHhc
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLI-FDHIKG  131 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~  131 (287)
                      ...|++.++.. |.+..++..+...|.+.|++++|.+. +++..+
T Consensus        85 ~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           85 VECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            55555555544 33445555555555555555443332 344443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.31  E-value=1.5e-10  Score=89.34  Aligned_cols=169  Identities=10%  Similarity=0.007  Sum_probs=135.7

Q ss_pred             CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHH
Q 023133           64 RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNI  143 (287)
Q Consensus        64 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  143 (287)
                      .+.+...+..+...+...|++++|...++++.+.. |.+...+..+...+.+.|++++|...++++...  .|+......
T Consensus       113 lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~  189 (287)
T 3qou_A          113 LPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGL  189 (287)
T ss_dssp             SCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHH
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHH
Confidence            34455667778888899999999999999999886 567888999999999999999999999998765  455443332


Q ss_pred             -HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc-CCHHHHHHHHHHHHhc
Q 023133          144 -VLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIK-PDLLTYTALIDSFGRT  221 (287)
Q Consensus       144 -l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~  221 (287)
                       ....+...++.++|...+++..+.... +...+..+...+...|++++|...+.++.+.... .+...+..++..+...
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence             233466778888899999998887543 6788889999999999999999999999876311 1256788999999999


Q ss_pred             CCHHHHHHHHHHHHh
Q 023133          222 GNIEESLRLFNDMKQ  236 (287)
Q Consensus       222 g~~~~a~~~~~~~~~  236 (287)
                      |+.++|...+++...
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            999999988887653

>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=99.31  E-value=1.9e-10  Score=89.76  Aligned_cols=224  Identities=8%  Similarity=0.014  Sum_probs=157.6

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh-cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE-TNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      ..|++++|.+++++..+....          .+.. .++++.|...|.+.               ...+...|++++|..
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~----------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT----------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC----------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc----------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            356777888888776654331          1222 56777777777664               456778899999999


Q ss_pred             HHHHHHhcCC---C--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCCC--HhhHHHHHHHHHhcCCHHHHH
Q 023133           90 FIEEVVQIAS---P--ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KCKPD--LITYNIVLDILGRVGRVNDML  158 (287)
Q Consensus        90 ~~~~~~~~~~---~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~  158 (287)
                      .+.+..+...   .  .-..+|+.+...|.+.|++++|...|++..+.    | .+.  ..+++.+..+|.. |++++|+
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~  135 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAV  135 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHH
Confidence            9988765421   1  12457888999999999999999999887542    2 222  3467788888888 9999999


Q ss_pred             HHHHHHHHcCCCC-----ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcCC-HHHHHHHHHHHHhcCCHHHHH
Q 023133          159 NEFASMKEAGVVP-----DFISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKPD-LLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       159 ~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      ..|++..+.....     ...++..+...+.+.|++++|...|++..+.    +..++ ...+..+..++...|++++|.
T Consensus       136 ~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~  215 (307)
T 2ifu_A          136 HLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQ  215 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999876532111     1457888899999999999999999988753    21222 235667777888889999999


Q ss_pred             HHHHHHHhCCCCcc------hHhHHHHHHHHHhcCChHHHHHH
Q 023133          229 RLFNDMKQQQIRPS------IYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       229 ~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                      ..|++.. .  .|+      ......++.++ ..|+.+.+.++
T Consensus       216 ~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          216 KCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            9999988 4  332      12344555555 56777666653

>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=99.31  E-value=1.7e-09  Score=92.61  Aligned_cols=233  Identities=9%  Similarity=0.042  Sum_probs=179.1

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHH-HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           50 DLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLL-IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  128 (287)
                      +.+..+|++.+.. .+-....|...+..+...|+.++|. +++++.... .|.+...|-..+....+.|+++.|.++|++
T Consensus       326 ~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            3456678888765 4557788888888888889999996 999999875 466777888889999999999999999998


Q ss_pred             HhcCC---------CCCC------------HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc-
Q 023133          129 IKGLK---------CKPD------------LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI-  186 (287)
Q Consensus       129 ~~~~~---------~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  186 (287)
                      +.+..         ..|+            ...|...+....+.|..+.|..+|....+.-..+....|...+..-.+. 
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhC
Confidence            87531         0132            2367788888888999999999999998761112334444333333344 


Q ss_pred             CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--cchHhHHHHHHHHHhcCChHHHHH
Q 023133          187 RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR--PSIYVYRSLIDNLKKMGKVDLAMT  264 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~  264 (287)
                      ++.+.|..+|+...+. .+.+...+...++.....|+.+.|..+|++.......  -....|...+.--.+.|+.+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4589999999999876 3445666778888888899999999999999976422  145678888888889999999999


Q ss_pred             HHHHHhhcCCCCCChhhHhhh
Q 023133          265 IFEEMNSSLSDLAGPKDFKRK  285 (287)
Q Consensus       265 ~~~~~~~~~~~~~~~~~~~~~  285 (287)
                      +.+++.+..|+.+....|..+
T Consensus       563 v~~R~~~~~P~~~~~~~f~~r  583 (679)
T 4e6h_A          563 LEKRFFEKFPEVNKLEEFTNK  583 (679)
T ss_dssp             HHHHHHHHSTTCCHHHHHHHH
T ss_pred             HHHHHHHhCCCCcHHHHHHHH
Confidence            999999999998877777654

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.31  E-value=1.2e-10  Score=98.67  Aligned_cols=156  Identities=12%  Similarity=0.054  Sum_probs=120.2

Q ss_pred             cCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 023133           12 AGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFI   91 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~   91 (287)
                      .|++++|++.|++..+.++.....+..+...+.+.|++++|.+.+++..+.. +.+...+..+..++...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4789999999999988776555889999999999999999999999998763 345778888999999999999999999


Q ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc---CCHHHHHHHHHHHHHcC
Q 023133           92 EEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV---GRVNDMLNEFASMKEAG  168 (287)
Q Consensus        92 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~  168 (287)
                      ++..+.. +.+...+..+..+|.+.|++++|.+.+++..+.. +.+...+..+..++...   |++++|.+.+++..+.+
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            9999886 5678899999999999999999999999988764 34567888899999999   99999999999998875


Q ss_pred             CC
Q 023133          169 VV  170 (287)
Q Consensus       169 ~~  170 (287)
                      ..
T Consensus       159 p~  160 (568)
T 2vsy_A          159 VG  160 (568)
T ss_dssp             CC
T ss_pred             Cc
Confidence            43

>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=99.31  E-value=5.6e-11  Score=84.81  Aligned_cols=160  Identities=11%  Similarity=0.053  Sum_probs=89.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhc
Q 023133          108 RIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-LRKI  186 (287)
Q Consensus       108 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~  186 (287)
                      .+...+.+.|++++|...|++..+.. +.+...+..+..++...|++++|...++......  |+...+...... +...
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhh
Confidence            34445555566666666665554332 2234455555556666666666666665554432  222222211111 1122


Q ss_pred             CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc-chHhHHHHHHHHHhcCChHHHHHH
Q 023133          187 RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP-SIYVYRSLIDNLKKMGKVDLAMTI  265 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~  265 (287)
                      +...+|...+++..+.. +.+...+..+..++...|++++|...|+++.+....+ +...+..+...+...|+.++|...
T Consensus        88 ~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~  166 (176)
T 2r5s_A           88 AAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASK  166 (176)
T ss_dssp             HTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHH
T ss_pred             cccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHH
Confidence            22334566676666542 3346677777777777777777777777777653221 244677777777777777777777


Q ss_pred             HHHHhh
Q 023133          266 FEEMNS  271 (287)
Q Consensus       266 ~~~~~~  271 (287)
                      |++...
T Consensus       167 y~~al~  172 (176)
T 2r5s_A          167 YRRQLY  172 (176)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776643

>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=99.30  E-value=2.2e-09  Score=78.94  Aligned_cols=174  Identities=8%  Similarity=-0.062  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC----CHHHHHHHHH
Q 023133           87 LLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG----RVNDMLNEFA  162 (287)
Q Consensus        87 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~  162 (287)
                      |.+.|++..+.|   ++..+..+...|...+++++|+..|++..+.|   +...+..|...|.. +    ++++|..+|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            344444444432   33444445555555555555555555555432   33444444444444 4    5555555555


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCc-CCHHHHHHHHHHHHh----cCCHHHHHHHHHH
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIK-PDLLTYTALIDSFGR----TGNIEESLRLFND  233 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~~  233 (287)
                      +..+.|   +...+..+...|..    .+++++|.++|++..+.|.. .+...+..|...|..    .+++++|..+|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            555443   33444455555544    45555565555555554311 013445555555555    5556666666665


Q ss_pred             HHhCCCCcchHhHHHHHHHHHhc-C-----ChHHHHHHHHHHhhc
Q 023133          234 MKQQQIRPSIYVYRSLIDNLKKM-G-----KVDLAMTIFEEMNSS  272 (287)
Q Consensus       234 ~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~  272 (287)
                      ..+.  ..+...+..|...|... |     ++++|..+|++..+.
T Consensus       155 A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          155 SSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            5554  12333444444444432 2     556666666555443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.30  E-value=3.4e-11  Score=83.54  Aligned_cols=57  Identities=5%  Similarity=-0.005  Sum_probs=21.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          109 IIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      +...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|...|+...+
T Consensus        37 la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~   93 (150)
T 4ga2_A           37 FAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVE   93 (150)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHH
Confidence            3333444444444444443333321 12233333333344444444444444444333

>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=99.29  E-value=1.5e-09  Score=79.81  Aligned_cols=162  Identities=7%  Similarity=-0.059  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC----CHHHHHHHHHHHhcCCCCCCHhhHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR----QIEKALLIFDHIKGLKCKPDLITYNI  143 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~  143 (287)
                      ...+..+...+...+++++|..+|++..+.|   +...+..|...|.. +    ++++|.+.|++..+.|   +...+..
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~   90 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIV   90 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            3344444444444455555555555544433   23334444444444 3    4555555555544422   3334444


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHcCCC-CChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHH
Q 023133          144 VLDILGR----VGRVNDMLNEFASMKEAGVV-PDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTAL  214 (287)
Q Consensus       144 l~~~~~~----~~~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  214 (287)
                      |...|..    .+++++|+.+|++..+.|.. .+...+..|...|..    .++.++|..+|++..+.  ..+...+..|
T Consensus        91 Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~L  168 (212)
T 3rjv_A           91 LARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWA  168 (212)
T ss_dssp             HHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHH
Confidence            4444443    44555555555555444321 013444445555544    44555555555555544  1222344444


Q ss_pred             HHHHHhc-C-----CHHHHHHHHHHHHhCC
Q 023133          215 IDSFGRT-G-----NIEESLRLFNDMKQQQ  238 (287)
Q Consensus       215 ~~~~~~~-g-----~~~~a~~~~~~~~~~~  238 (287)
                      ...|... |     ++++|..+|++..+.|
T Consensus       169 g~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          169 GMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            4444432 2     5566666666555544

>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=99.25  E-value=2.4e-10  Score=89.13  Aligned_cols=191  Identities=11%  Similarity=0.092  Sum_probs=136.4

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-C----HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC---CC--cHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTL-S----SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS---PE--SII  104 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~  104 (287)
                      .|......|...|++++|...+.+........ +    ..++..+..+|...|++++|...+++..+...   .+  ...
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~  117 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAM  117 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            44455677888999999999998886542111 1    34777888889999999999999998765421   12  246


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCC---CC--CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-hh
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLKC---KP--DLITYNIVLDILGRVGRVNDMLNEFASMKEA----GVVPD-FI  174 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-~~  174 (287)
                      +++.+...|.. |++++|+..|++..+...   .+  ...+++.+...|.+.|++++|+..|++..+.    +..++ ..
T Consensus       118 ~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  196 (307)
T 2ifu_A          118 ALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYK  196 (307)
T ss_dssp             HHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHH
Confidence            78888899988 999999999988764310   11  1357888899999999999999999998653    21111 23


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC------HHHHHHHHHHHHhcCCHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD------LLTYTALIDSFGRTGNIEESLRL  230 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~a~~~  230 (287)
                      .+..+...+...|++++|...|++.. .  .|+      ......++.++ ..|+.+.+..+
T Consensus       197 ~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~  254 (307)
T 2ifu_A          197 KCIAQVLVQLHRADYVAAQKCVRESY-S--IPGFSGSEDCAALEDLLQAY-DEQDEEQLLRV  254 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHT-T--STTSTTSHHHHHHHHHHHHH-HTTCHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHh-C--CCCCCCCHHHHHHHHHHHHH-HhcCHHHHHHH
Confidence            56667777888899999999999988 4  332      12344555555 56777666553

>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=99.22  E-value=3e-08  Score=76.66  Aligned_cols=209  Identities=10%  Similarity=-0.015  Sum_probs=142.7

Q ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHH---HHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           55 ILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESII---VVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        55 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      .+.++......|+..+...+...+.-.-         +.+.......+..   .+...+..+...|++++|...+++..+
T Consensus        33 ~~s~~e~g~~~~~~~~l~~i~~~l~~~~---------~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~  103 (293)
T 3u3w_A           33 EVSRIESGAVYPSMDILQGIAAKLQIPI---------IHFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELK  103 (293)
T ss_dssp             HHHHHHTTSCCCCHHHHHHHHHHHTCCT---------HHHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHhCcCH---------HHHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhc
Confidence            3444444345677777766666554321         1111211122222   333446778899999999999999876


Q ss_pred             CCC-CCCH----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          132 LKC-KPDL----ITYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD----FISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       132 ~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      ... .|+.    ..+..+...+...+++++|...|++..+.... ++    ..+++.+...|...|++++|..+++++.+
T Consensus       104 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~  183 (293)
T 3u3w_A          104 KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILK  183 (293)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            421 2221    13345667777888999999999999874322 22    23688899999999999999999999873


Q ss_pred             ----C-CCcCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCcc-hHhHHHHHHHHHhcCC-hHHHHHHHHHH
Q 023133          202 ----S-GIKPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ----QIRPS-IYVYRSLIDNLKKMGK-VDLAMTIFEEM  269 (287)
Q Consensus       202 ----~-~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~~-~~~~~~li~~~~~~g~-~~~a~~~~~~~  269 (287)
                          . +..+. ..++..+...|.+.|++++|...+++..+.    +..+. ..+|..+..++...|+ +++|.+.++++
T Consensus       184 ~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          184 QLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHH
Confidence                1 21222 237888999999999999999999988743    21222 5678888999999995 69999999988


Q ss_pred             hhc
Q 023133          270 NSS  272 (287)
Q Consensus       270 ~~~  272 (287)
                      ...
T Consensus       264 l~i  266 (293)
T 3u3w_A          264 SFF  266 (293)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.22  E-value=1.7e-10  Score=88.84  Aligned_cols=203  Identities=8%  Similarity=0.019  Sum_probs=115.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHH
Q 023133           67 SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLD  146 (287)
Q Consensus        67 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  146 (287)
                      +...+..+...+...|++++|...+++.++.. +.+...+..+..+|.+.|++++|...+++..+.. +.+...+..+..
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            34556666677777778888888877777765 4567777777788888888888888888777653 335567777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      ++...|++++|...|+...+.+.. +...+...+....+..   ++.. +........+.+......+.. + ..|+.++
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~i~~~l~~-l-~~~~~~~  153 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRIA---KKKR-WNSIEERRIHQESELHSYLTR-L-IAAERER  153 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHHH---HHHH-HHHHHHTCCCCCCHHHHHHHH-H-HHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHHH---HHHH-HHHHHHHHHhhhHHHHHHHHH-H-HHHHHHH
Confidence            788888888888888776553211 1011111111111111   1111 111222222333333333322 2 2577788


Q ss_pred             HHHHHHHHHhCCCCcch-HhHHHHHHHHHhc-CChHHHHHHHHHHhhcCCCCCChh
Q 023133          227 SLRLFNDMKQQQIRPSI-YVYRSLIDNLKKM-GKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~-~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      |++.++...+.  .|+. .....+...+.+. +.+++|.++|.++....+....|.
T Consensus       154 A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~~~~~~~~~  207 (281)
T 2c2l_A          154 ELEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEKRKKRDIPD  207 (281)
T ss_dssp             HHTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCTTSCCCCCS
T ss_pred             HHHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCCc
Confidence            88887777654  3443 3333333334443 567788888888766544433333

>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=99.18  E-value=2.4e-09  Score=78.59  Aligned_cols=148  Identities=10%  Similarity=0.022  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ...+..+...+...|++++|...|++..    .|+...+..+..++...|++++|...|++..+... .+...+..+..+
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~   80 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHH
Confidence            3445667788889999999999998875    56788899999999999999999999999887653 367788889999


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhH
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPD----------------LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVY  246 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  246 (287)
                      +...|++++|...+++..+.. +.+                ...+..+..+|...|++++|.+.|++..+.  .|+.   
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~---  154 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM--KSEP---  154 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSG---
T ss_pred             HHHcccHHHHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc--Cccc---
Confidence            999999999999999988753 222                267788888999999999999999998875  4544   


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHH
Q 023133          247 RSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       247 ~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                              ..+..+.|...+.+.
T Consensus       155 --------~~~~~~~a~~~~~~~  169 (213)
T 1hh8_A          155 --------RHSKIDKAMECVWKQ  169 (213)
T ss_dssp             --------GGGHHHHHHHHHHTT
T ss_pred             --------ccchHHHHHHHHHhc
Confidence                    234455665555543

>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=99.18  E-value=5.5e-09  Score=76.66  Aligned_cols=128  Identities=6%  Similarity=-0.044  Sum_probs=88.6

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      +..+...+...|++++|+..+++.    +.|+...+..+..++...|++++|...+++..+.. +.+...+..+..+|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            445566666777777777777665    35566677777777777777777777777777665 4566677777777777


Q ss_pred             cCCHHHHHHHHHHHhcCCCC--------------C-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133          116 SRQIEKALLIFDHIKGLKCK--------------P-DLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~--------------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      .|++++|...|++..+....              | ....+..+..++.+.|++++|...|+...+..
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            77777777777777654211              1 12466677777777888888888877777653

>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=99.17  E-value=7.9e-08  Score=75.18  Aligned_cols=167  Identities=7%  Similarity=-0.032  Sum_probs=68.7

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-C-CHHHHHHHH
Q 023133           50 DLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD-DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS-R-QIEKALLIF  126 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~~a~~~~  126 (287)
                      ++|++++++++..+ +-+..+|+.--.++...+ .+++++.+++.++... +-+..+|+.-...+.+. + +++++++.+
T Consensus        71 e~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           71 ERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            34444444444432 112233333333333333 2444444444444443 33344444444444333 3 444444444


Q ss_pred             HHHhcCCCCCCHhhHHHHHHHHHhcCCHH--------HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc-------hHH
Q 023133          127 DHIKGLKCKPDLITYNIVLDILGRVGRVN--------DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR-------LDL  191 (287)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~  191 (287)
                      +.+.+.. +.+-.+|+.-.-++.+.|.++        ++++.++++.+..+. |..+|+.-...+.+.+.       +++
T Consensus       149 ~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~~~~~~~~~e  226 (349)
T 3q7a_A          149 HGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGAETSSRSLQD  226 (349)
T ss_dssp             HHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTCCCCHHHHHH
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccccchHHHHH
Confidence            4444432 223334433333333222222        445555555444333 44444444444444443       344


Q ss_pred             HHHHHHHHhhCCCcCCHHHHHHHHHHHHhc
Q 023133          192 CLIYFREMGESGIKPDLLTYTALIDSFGRT  221 (287)
Q Consensus       192 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  221 (287)
                      +++.+.++.... +-|...|+.+-..+.+.
T Consensus       227 ELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~  255 (349)
T 3q7a_A          227 ELIYILKSIHLI-PHNVSAWNYLRGFLKHF  255 (349)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            555554444432 23444444444444333

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.15  E-value=3e-08  Score=76.70  Aligned_cols=169  Identities=9%  Similarity=-0.028  Sum_probs=116.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-H----hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC---CC--
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-L----ITYNIVLDILGRVGRVNDMLNEFASMKEAGVV---PD--  172 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~--  172 (287)
                      ...+...+..+...|++++|.+.+.+..+.....+ .    ..+..+...+...|++++|...+++..+....   +.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34555667778888889888888877765421111 1    12344556667788899999888887653211   11  


Q ss_pred             hhHHHHHHHHHHhcCchHHHHHHHHHHhh---C-CCcC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCc-
Q 023133          173 FISYNTLLNNLRKIRRLDLCLIYFREMGE---S-GIKP--DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ----IRP-  241 (287)
Q Consensus       173 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~-~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~-  241 (287)
                      ..+|+.+...|...|++++|...+++..+   . +..+  ...++..+..+|...|++++|...+++..+..    ... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            34778888888889999999998888762   2 1111  12577788888899999999999988876431    111 


Q ss_pred             chHhHHHHHHHHHhcCChHHH-HHHHHHHhh
Q 023133          242 SIYVYRSLIDNLKKMGKVDLA-MTIFEEMNS  271 (287)
Q Consensus       242 ~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  271 (287)
                      -..+|..+..++...|++++| ...++++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            156778888888899999998 777877644

>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=99.13  E-value=2.7e-10  Score=78.74  Aligned_cols=97  Identities=10%  Similarity=-0.048  Sum_probs=56.4

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHH
Q 023133          138 LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDS  217 (287)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  217 (287)
                      ...+..+...+...|++++|...|+........ +...|..+..++...|++++|...|++..+.. +.+...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHH
Confidence            334555555666666666666666666554322 45555556666666666666666666665542 2244455556666


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 023133          218 FGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       218 ~~~~g~~~~a~~~~~~~~~  236 (287)
                      |...|++++|.+.|++..+
T Consensus        99 ~~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.12  E-value=2.1e-09  Score=81.38  Aligned_cols=190  Identities=8%  Similarity=-0.030  Sum_probs=134.9

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHH-------HHHHHhcCCHHHHHHHHHHHhcCCCCCCH--------------
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRI-------IFAFAKSRQIEKALLIFDHIKGLKCKPDL--------------  138 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--------------  138 (287)
                      ..++...|.+.|.++.+.. |.....|..+       ...+.+.++..+++..+.+-.+.  .|+.              
T Consensus        18 ~~~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           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQI--SMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTC--CGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcC--ChhhhhhhhccCCccccc
Confidence            5688888888998888876 5667778777       45565555566666555554432  2211              


Q ss_pred             --------hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC--H
Q 023133          139 --------ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD--L  208 (287)
Q Consensus       139 --------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~  208 (287)
                              ...-.+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..|+...... .|.  .
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                    123345667788899999999998887654  443355556667888999999999998665432 111  2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc--hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          209 LTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       209 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ..+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++....|+
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            3567788889999999999999998875433243  345666777888999999999999999888886

>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=99.12  E-value=4.6e-08  Score=83.80  Aligned_cols=233  Identities=11%  Similarity=0.028  Sum_probs=174.2

Q ss_pred             hHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHH-HHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 023133           16 SAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSF-QILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEV   94 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~   94 (287)
                      +.+..+|++.....+..+..|...+..+...|+.+.|. .+|++.... .+.+...+...+....+.|+++.|.++|+.+
T Consensus       326 ~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          326 ARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            34567788888877666688999999999999999997 999999864 4456666777888888899999999999998


Q ss_pred             HhcC----------CCC-----------cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC-CCCCCHhhHHHHHHHHHhc-
Q 023133           95 VQIA----------SPE-----------SIIVVNRIIFAFAKSRQIEKALLIFDHIKGL-KCKPDLITYNIVLDILGRV-  151 (287)
Q Consensus        95 ~~~~----------~~~-----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~-  151 (287)
                      ++..          .+.           ...+|...+....+.|+.+.|..+|.+..+. + ......|...+..-.+. 
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhC
Confidence            7642          121           2347888888888999999999999999875 2 12233343333222333 


Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcC--CHHHHHHHHHHHHhcCCHHHHHH
Q 023133          152 GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKP--DLLTYTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~  229 (287)
                      ++++.|..+|+...+. .+-+...+...+......|+.+.|..+|++.......+  ....|...+..-.+.|+.+.+.+
T Consensus       484 ~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          484 KDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             SCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            4589999999998876 33356667788888888999999999999998764222  34578888888889999999999


Q ss_pred             HHHHHHhCCCCcchHhHHHHHHHH
Q 023133          230 LFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      +.+++.+.  .|+......+++-|
T Consensus       563 v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          563 LEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHHHHh--CCCCcHHHHHHHHh
Confidence            99999975  34444444444433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.11  E-value=2.7e-09  Score=71.52  Aligned_cols=102  Identities=11%  Similarity=0.016  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  254 (287)
                      .+......|.+.|++++|.+.|++.++.. +.+...|..+..+|.+.|++++|+..+++.++.+ +.+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            44455555666666666666666655543 3345556666666666666666666666665532 233455666666666


Q ss_pred             hcCChHHHHHHHHHHhhcCCCCCC
Q 023133          255 KMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      ..|++++|.+.|+++.+..|+++.
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~  116 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEE  116 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHH
Confidence            666666666666666666665543

>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=99.11  E-value=6.5e-09  Score=80.43  Aligned_cols=168  Identities=11%  Similarity=0.036  Sum_probs=121.7

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcC-CCCH----HHHHHHHHHHhccCChHHHHHHHHHHHhcCCC-Cc----H
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSR-TLSS----DCYTNFARAFIMTDDCTQLLIFIEEVVQIASP-ES----I  103 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~  103 (287)
                      ..+...+..+...|++++|..++++...... .|+.    ..+..+...+...+++++|...++++.+.... ++    .
T Consensus        76 ~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~  155 (293)
T 3u3w_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHH
Confidence            5777777888888999999999988876421 1221    12334666777788999999999988874322 22    3


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhc----C-CCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC-
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKG----L-KCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKEA----GVVPD-  172 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  172 (287)
                      .+++.+...|...|++++|...|+++.+    . +..+. ..++..+...|.+.|++++|...+++..+.    +..+. 
T Consensus       156 ~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~  235 (293)
T 3u3w_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHH
Confidence            4688899999999999999999988763    1 11222 237788889999999999999998887542    22222 


Q ss_pred             hhHHHHHHHHHHhcCc-hHHHHHHHHHHhh
Q 023133          173 FISYNTLLNNLRKIRR-LDLCLIYFREMGE  201 (287)
Q Consensus       173 ~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~  201 (287)
                      ..+|..+..++.+.|+ .++|.+.+++...
T Consensus       236 ~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            5678888888999995 5889888887753

>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=99.10  E-value=1.2e-07  Score=74.15  Aligned_cols=226  Identities=11%  Similarity=0.080  Sum_probs=168.1

Q ss_pred             HHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC-ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc-C-Ch
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN-DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT-D-DC   84 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~   84 (287)
                      ...+.+..++|+++++.+...++....+|+.--..+...+ .++++++.++.++... +-+..+|+.-..++... + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            3344556678999999999999776688988888888888 5999999999999864 33667787766666665 6 88


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH--------HHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC---
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE--------KALLIFDHIKGLKCKPDLITYNIVLDILGRVGR---  153 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  153 (287)
                      ++++++++++++.. +.+..+|+.-...+.+.|.++        ++++.++++.+.. +.+...|+.....+.+.+.   
T Consensus       142 ~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~  219 (349)
T 3q7a_A          142 VSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAET  219 (349)
T ss_dssp             HHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccccc
Confidence            99999999999876 678888888777777777766        8999999998765 4577789888888888876   


Q ss_pred             ----HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCch--------------------HHHHHHHHHHhhCC-----C
Q 023133          154 ----VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRL--------------------DLCLIYFREMGESG-----I  204 (287)
Q Consensus       154 ----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~~~~~~-----~  204 (287)
                          ++++++.+.+....... |...|+.+-..+.+.|..                    .........+...+     -
T Consensus       220 ~~~~~~eELe~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  298 (349)
T 3q7a_A          220 SSRSLQDELIYILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTP  298 (349)
T ss_dssp             CHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCC
T ss_pred             chHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccC
Confidence                78999999998887655 778888777766666654                    22333333333221     1


Q ss_pred             cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          205 KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .++......|++.|...|+.++|.++++.+.+.
T Consensus       299 ~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          299 LPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            356667777788888888888888888887643

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.10  E-value=7.9e-09  Score=75.08  Aligned_cols=156  Identities=9%  Similarity=-0.027  Sum_probs=88.7

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCC-CHhhHHHHHHHHHhcCCH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKG----LKCKP-DLITYNIVLDILGRVGRV  154 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~  154 (287)
                      ..|++++|.+.++.+.. .......++..+...+...|++++|...+++..+    .+..+ ...++..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            45666666664443322 2223455666666667777777777776666543    11111 233556666667777777


Q ss_pred             HHHHHHHHHHHHc----CCCC--ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcC-CHHHHHHHHHHHHhcCC
Q 023133          155 NDMLNEFASMKEA----GVVP--DFISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKP-DLLTYTALIDSFGRTGN  223 (287)
Q Consensus       155 ~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~  223 (287)
                      ++|...+++..+.    +-.|  ....+..+...+...|++++|...+++..+.    +... -..++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777777665432    1111  1234566666777777777777777766531    1111 12235667777777888


Q ss_pred             HHHHHHHHHHHHh
Q 023133          224 IEESLRLFNDMKQ  236 (287)
Q Consensus       224 ~~~a~~~~~~~~~  236 (287)
                      +++|.+.+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888877776653

>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=99.09  E-value=1.9e-09  Score=76.79  Aligned_cols=120  Identities=13%  Similarity=0.122  Sum_probs=65.3

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHH-HhccCCh--HHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARA-FIMTDDC--TQL   87 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~~a   87 (287)
                      ..|++++|+..|+.....++....+|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  ++|
T Consensus        22 ~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             -----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             hccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            44556666666666555554333556666666666666666666666665542 2244445555555 4455555  666


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      ...++++.+.. +.+...+..+...|...|++++|...|+++.+.
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            66666665554 344555555666666666666666666665544

>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=99.09  E-value=1e-08  Score=71.90  Aligned_cols=129  Identities=9%  Similarity=0.005  Sum_probs=95.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|...+++..... +.+...+..+..++...|++++|...+++..+.. +.+..++..+...+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            467777778888888888888888887653 3356777778888888888888888888888775 45677788888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYN--IVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      ...|++++|...|++..+.. +.+...+.  .+...+...|++++|...+....
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            88888888888888877653 22344443  33344667788888888887654

>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=99.08  E-value=1.4e-08  Score=71.15  Aligned_cols=125  Identities=13%  Similarity=0.120  Sum_probs=62.1

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           71 YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        71 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      +..+...+...|++++|...+++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+..++..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            4444455555566666666666555543 3345555555555555566666665555554432 2234445555555555


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhHHHH--HHHHHHhcCchHHHHHHHHH
Q 023133          151 VGRVNDMLNEFASMKEAGVVPDFISYNT--LLNNLRKIRRLDLCLIYFRE  198 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~~~~~~~~a~~~~~~  198 (287)
                      .|++++|...|++..+.... +...+..  ....+...|++++|...+..
T Consensus        94 ~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            55555555555555443221 2222211  22224444555555554443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.07  E-value=6.9e-09  Score=69.47  Aligned_cols=109  Identities=10%  Similarity=0.004  Sum_probs=87.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+......+.+.|++++|++.|++.++.. +.+...|..+..++...|++++|+..+++.++.. +.+...|..+..+|
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            677888888999999999999999988763 4467788888889999999999999999988876 56778888899999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVL  145 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  145 (287)
                      ...|++++|.+.|++..+.. +-+...+..+-
T Consensus        92 ~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l~  122 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVD-PSNEEAREGVR  122 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-cCCHHHHHHHH
Confidence            99999999999999887763 23444444443

>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=99.07  E-value=2e-09  Score=76.65  Aligned_cols=121  Identities=7%  Similarity=0.015  Sum_probs=73.4

Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhcCch--H
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-LRKIRRL--D  190 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~--~  190 (287)
                      ...|++++|...+++..+.. +.+...|..+...|...|++++|...|++..+.... +...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGE-NAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCCcchH
Confidence            34566667777776665543 335556666777777777777777777776654322 45555556666 5566666  7


Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +|...+++..+.. +.+...+..+..+|...|++++|...|+++.+.
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            7777777766553 334556666666777777777777777776654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=99.07  E-value=6.8e-09  Score=78.58  Aligned_cols=49  Identities=10%  Similarity=-0.033  Sum_probs=35.2

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHH-------HHHHhhcCChhHHHHHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCV-------LVASAETNDIDLSFQILKDL   59 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~   59 (287)
                      ..++.+.|.+.|.+....++.....|..+       ...+...++..+++..+..-
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~   73 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGS   73 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHT
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHH
Confidence            68999999999999999887766888877       45555555555555544443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.05  E-value=3.6e-09  Score=76.88  Aligned_cols=153  Identities=8%  Similarity=-0.037  Sum_probs=81.7

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhc----CC-CCHHHHHHHHHHHhccCC
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSS----RT-LSSDCYTNFARAFIMTDD   83 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~   83 (287)
                      ...|++++|.+.++.+.. .+... .++..+...+...|++++|...+++.....    .. ....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            456777777775544433 22122 667777777777777777777777765421    11 123345555666666677


Q ss_pred             hHHHHHHHHHHHhc---CC-C--CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCCC--HhhHHHHHHHHHhc
Q 023133           84 CTQLLIFIEEVVQI---AS-P--ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KCKPD--LITYNIVLDILGRV  151 (287)
Q Consensus        84 ~~~a~~~~~~~~~~---~~-~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~  151 (287)
                      +++|...+++..+.   .. .  ....++..+...+...|++++|...+++..+.    + .+.  ..++..+..++...
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~-~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQAD-DQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcc-chHHHHHHHHHHHHHHHHC
Confidence            77766666665443   10 1  12334555666666666666666666554321    1 111  11234555555566


Q ss_pred             CCHHHHHHHHHHH
Q 023133          152 GRVNDMLNEFASM  164 (287)
Q Consensus       152 ~~~~~a~~~~~~~  164 (287)
                      |++++|...+++.
T Consensus       161 g~~~~A~~~~~~a  173 (203)
T 3gw4_A          161 KNLLEAQQHWLRA  173 (203)
T ss_dssp             TCHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHH
Confidence            6666666555554

>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=99.05  E-value=5.4e-10  Score=88.25  Aligned_cols=130  Identities=12%  Similarity=0.017  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc--------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPES--------------IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC  134 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  134 (287)
                      ..+..+...+.+.|++++|...|++.++......              ..+|..+..+|.+.|++++|+..+++..+.. 
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  226 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-  226 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            3444445555555555555555555554431111              3566666666666666666666666665543 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH-HHHHHHHh
Q 023133          135 KPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC-LIYFREMG  200 (287)
Q Consensus       135 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~  200 (287)
                      +.+...|..+..+|...|++++|...|++..+.... +...+..+..++.+.|+.+++ ...+..|.
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            234556666666666666666666666666655322 445566666666666666666 33444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.04  E-value=9.2e-09  Score=71.06  Aligned_cols=96  Identities=10%  Similarity=0.008  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      .+..+...+.+.|++++|...|+++.+.. |.+...|..+..+|...|++++|...|++..+.. +.+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            33444444455555555555555555443 3444455555555555555555555555554432 223344445555555


Q ss_pred             hcCCHHHHHHHHHHHHHc
Q 023133          150 RVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~  167 (287)
                      +.|++++|...|+...+.
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            555555555555555443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=4e-09  Score=72.88  Aligned_cols=96  Identities=10%  Similarity=-0.093  Sum_probs=54.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                      .+..+...+.+.|++++|...|+........ +...|..+..++...|++++|...|++..+.. +.+...|..+..+|.
T Consensus        38 ~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~~  115 (151)
T 3gyz_A           38 DIYSYAYDFYNKGRIEEAEVFFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQL  115 (151)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence            4555555556666666666666666554322 45555555666666666666666666655542 223445555556666


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 023133          220 RTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~  237 (287)
                      ..|++++|...|++..+.
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            666666666666665553

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.03  E-value=9.8e-08  Score=73.76  Aligned_cols=168  Identities=10%  Similarity=-0.008  Sum_probs=126.3

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc-----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC---CCC--H
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPES-----IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC---KPD--L  138 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~  138 (287)
                      ..+...+..+...|++++|.+.+++..+......     ...+..+...+...|++++|...+++..+...   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3455567788899999999999998887643221     12344566777888999999999998875321   111  3


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHH---cCC-CC--ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcCC-
Q 023133          139 ITYNIVLDILGRVGRVNDMLNEFASMKE---AGV-VP--DFISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKPD-  207 (287)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~-  207 (287)
                      .+++.+...|...|++++|...|++..+   ... .+  ...++..+...|...|++++|...+++..+.    +.... 
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            4788999999999999999999999863   211 11  1258888999999999999999999988643    11111 


Q ss_pred             HHHHHHHHHHHHhcCCHHHH-HHHHHHHHh
Q 023133          208 LLTYTALIDSFGRTGNIEES-LRLFNDMKQ  236 (287)
Q Consensus       208 ~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  236 (287)
                      ..+|..+..+|...|++++| ...+++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            56788999999999999999 777887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.03  E-value=2.7e-08  Score=65.86  Aligned_cols=93  Identities=11%  Similarity=0.204  Sum_probs=37.3

Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc
Q 023133           72 TNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV  151 (287)
Q Consensus        72 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  151 (287)
                      ..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...++++.+.. +.+..++..+...+...
T Consensus        13 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~   90 (125)
T 1na0_A           13 YNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQ   90 (125)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHh
Confidence            333334444444444444444443332 2233334444444444444444444444443321 12233333444444444


Q ss_pred             CCHHHHHHHHHHHHH
Q 023133          152 GRVNDMLNEFASMKE  166 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~  166 (287)
                      |++++|...++++.+
T Consensus        91 ~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           91 GDYDEAIEYYQKALE  105 (125)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            444444444444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.03  E-value=2e-08  Score=66.49  Aligned_cols=115  Identities=11%  Similarity=0.155  Sum_probs=88.8

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|++++|.+.++++.... +.+...+..+...+...|++++|...++++.+.. +.+..++..+...+
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            567788888888899999999998888763 3456777888888888899999999998888775 56677888888889


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV  151 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  151 (287)
                      ...|++++|...++++.+.. +.+...+..+...+...
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            99999999999998887653 33445555555555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.02  E-value=6.1e-09  Score=71.33  Aligned_cols=96  Identities=8%  Similarity=-0.055  Sum_probs=57.4

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHH
Q 023133          139 ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSF  218 (287)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  218 (287)
                      ..+..+...+.+.|++++|...|+........ +...|..+..++...|++++|...|++..+.. +.+...+..+..+|
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            34455555666666666666666666554332 45556666666666666666666666666543 33444555566666


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 023133          219 GRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       219 ~~~g~~~~a~~~~~~~~~  236 (287)
                      ...|++++|.+.|++..+
T Consensus        97 ~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666666654

>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=99.01  E-value=4e-09  Score=81.12  Aligned_cols=191  Identities=10%  Similarity=0.011  Sum_probs=129.0

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|+..|++.+... +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+|
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            567788888999999999999999998763 3367788888999999999999999999998876 56778888999999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCH-hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDL-ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      ...|++++|...|++..+..  |+. ..+...+....+.   .++. -+..........+......+ ..+ ..|+.++|
T Consensus        83 ~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~i~~~l-~~l-~~~~~~~A  154 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALRI---AKKK-RWNSIEERRIHQESELHSYL-TRL-IAAERERE  154 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHHH---HHHH-HHHHHHHTCCCCCCHHHHHH-HHH-HHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHH---HHHH-HHHHHHHHHHhhhHHHHHHH-HHH-HHHHHHHH
Confidence            99999999999998876542  221 1111111111111   1111 12223333333344443333 322 36888999


Q ss_pred             HHHHHHHhhCCCcCCHH-HHHHHHHHHHhc-CCHHHHHHHHHHHHh
Q 023133          193 LIYFREMGESGIKPDLL-TYTALIDSFGRT-GNIEESLRLFNDMKQ  236 (287)
Q Consensus       193 ~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~-g~~~~a~~~~~~~~~  236 (287)
                      .+.++...+.  .|+.. ....+...+.+. +.+++|.++|.++.+
T Consensus       155 ~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          155 LEECQRNHEG--HEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HTTTSGGGTT--TSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHhhhcc--ccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9998888765  45443 334444444444 668889999988765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=99.00  E-value=1.8e-08  Score=67.39  Aligned_cols=92  Identities=9%  Similarity=0.093  Sum_probs=37.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC
Q 023133           73 NFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG  152 (287)
Q Consensus        73 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (287)
                      .+...+...|+++.|...+++..+.. +.+..++..+...+...|++++|...+++..+.. +.+...+..+..++...|
T Consensus        17 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~   94 (131)
T 2vyi_A           17 TEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLN   94 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhC
Confidence            33334444444444444444444332 2233344444444444444444444444443321 122333344444444444


Q ss_pred             CHHHHHHHHHHHHH
Q 023133          153 RVNDMLNEFASMKE  166 (287)
Q Consensus       153 ~~~~a~~~~~~~~~  166 (287)
                      ++++|...|++..+
T Consensus        95 ~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           95 KHVEAVAYYKKALE  108 (131)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHh
Confidence            44444444444433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.99  E-value=2.8e-08  Score=66.75  Aligned_cols=61  Identities=8%  Similarity=-0.006  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~   77 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECI   77 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            333344444444444444444444433321 1123333333334444444444444444433

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.99  E-value=2.9e-08  Score=66.63  Aligned_cols=116  Identities=13%  Similarity=0.042  Sum_probs=94.2

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHH
Confidence            688888999999999999999999988653 3367788888889999999999999999998875 56778888899999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG  152 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (287)
                      .+.|++++|.+.|++..+.. +.+...+..+..++...|
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHhc
Confidence            99999999999999887653 234456666776766655

>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=98.98  E-value=1.1e-06  Score=68.34  Aligned_cols=223  Identities=9%  Similarity=0.083  Sum_probs=144.0

Q ss_pred             hcCChh-HHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCC----------hHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           45 ETNDID-LSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDD----------CTQLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        45 ~~~~~~-~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      +.|.++ +|+++.+.++..  .|+ ...|+.--..+...+.          +++++.+++.+.... |-+..+|+.-...
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445444 677777777754  333 3344433333322222          567777787777765 5667777777777


Q ss_pred             HHhcC--CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC-HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc---
Q 023133          113 FAKSR--QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR-VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI---  186 (287)
Q Consensus       113 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---  186 (287)
                      +.+.+  .+++++..++.+.+.. +.+-..|+.-.-++...|. ++++++.+..+.+..+. |..+|+.....+.+.   
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHHSCC
T ss_pred             HhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHhhhc
Confidence            77777  4788888888887654 4566777776666677777 57888888888877655 666776666555544   


Q ss_pred             -----------CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHhCCCCcchH
Q 023133          187 -----------RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT-----------GNIEESLRLFNDMKQQQIRPSIY  244 (287)
Q Consensus       187 -----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~  244 (287)
                                 +.++++++.+....... +-|...|+-+-..+.+.           +.++++++.++++.+.  .||. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-
T ss_pred             cccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-
Confidence                       45677888888777653 44666676555555444           4578888888888864  4543 


Q ss_pred             hHHH--HHH---HHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          245 VYRS--LID---NLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       245 ~~~~--li~---~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .|..  ++.   .....|..+++..++.++.+..|..
T Consensus       272 ~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r  308 (331)
T 3dss_A          272 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMR  308 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGG
T ss_pred             chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcch
Confidence            2322  221   1224577788888999888887754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.98  E-value=2.5e-08  Score=66.64  Aligned_cols=118  Identities=8%  Similarity=0.034  Sum_probs=91.4

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+...|+++.|...+++..... +.+...+..+..++...|++++|...+++..+.. +.+...+..+...+
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            567778888888888888888888887653 3456777778888888888888888888888775 45677888888888


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCH
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRV  154 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  154 (287)
                      ...|++++|...|++..+.. +.+...+..+..++...|++
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            88899999988888877653 33566777777777776653

>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=98.97  E-value=5.4e-09  Score=72.16  Aligned_cols=96  Identities=4%  Similarity=-0.057  Sum_probs=54.5

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|+..|++..... +.+...+..+..++...|++++|...+++..+.. |.+...+..+..+|
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            455555555666666666666666655442 2244555555555666666666666666665554 34445555555666


Q ss_pred             HhcCCHHHHHHHHHHHhc
Q 023133          114 AKSRQIEKALLIFDHIKG  131 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~  131 (287)
                      ...|++++|...|++..+
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666655544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.94  E-value=3e-08  Score=64.32  Aligned_cols=104  Identities=11%  Similarity=-0.039  Sum_probs=75.8

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc--chHhHHHH
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP--SIYVYRSL  249 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l  249 (287)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++..+.. +.  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHH
Confidence            34456666777777777777777777776653 3456677777778888888888888888887652 22  46677777


Q ss_pred             HHHHHhc-CChHHHHHHHHHHhhcCCCCC
Q 023133          250 IDNLKKM-GKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       250 i~~~~~~-g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      ..++... |++++|.+.++++....|..+
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            8888888 888888888888888777654

>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=98.94  E-value=2e-09  Score=78.21  Aligned_cols=129  Identities=9%  Similarity=0.037  Sum_probs=69.0

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc---------------HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPES---------------IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC  134 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  134 (287)
                      .+..+...+...|++++|...|++..+......               ..++..+..+|.+.|++++|...+++..+.. 
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-  118 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-  118 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-
Confidence            344444455555555555555555554321110               2556666666777777777777776665542 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHH-HHHHHHh
Q 023133          135 KPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCL-IYFREMG  200 (287)
Q Consensus       135 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~  200 (287)
                      +.+...+..+..+|...|++++|...|++..+.... +...+..+..++...++.+++. ..+..+.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHC----------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            334556666666677777777777777776655322 4455666666666666555555 4444444

>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=98.93  E-value=6.2e-08  Score=76.45  Aligned_cols=151  Identities=11%  Similarity=-0.003  Sum_probs=122.8

Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC----------------HhhHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD----------------LITYNIV  144 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----------------~~~~~~l  144 (287)
                      .+++++|...++...+.. +.+...+..+...|.+.|++++|...|++..+..  |+                ...|..+
T Consensus       126 L~~~~~A~~~~~~a~~~~-p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEEK-LEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEECCCCGGGCCHHHH-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHH
Confidence            455556665555544433 3468889999999999999999999999988763  33                4788999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI  224 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  224 (287)
                      ..+|.+.|++++|+..+++..+.... +...|..+..+|...|++++|...|++..+.. +.+...+..+..++...|+.
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~  280 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQ  280 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999887543 77889999999999999999999999998864 44677888899999999999


Q ss_pred             HHH-HHHHHHHHh
Q 023133          225 EES-LRLFNDMKQ  236 (287)
Q Consensus       225 ~~a-~~~~~~~~~  236 (287)
                      ++| ...++.|..
T Consensus       281 ~~a~~~~~~~~~~  293 (336)
T 1p5q_A          281 LAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            988 456666653

>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=98.93  E-value=5.7e-06  Score=64.42  Aligned_cols=223  Identities=13%  Similarity=0.087  Sum_probs=163.8

Q ss_pred             HHHhcCChh-HHHHHHHHHhhcCCCCchhHHHHHHHHhhcCC----------hhHHHHHHHHHHHhcCCCCHHHHHHHHH
Q 023133            8 KLCKAGNVS-AAVRLLQSLRDKNIFLPNAYNCVLVASAETND----------IDLSFQILKDLLVSSRTLSSDCYTNFAR   76 (287)
Q Consensus         8 ~~~~~g~~~-~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~   76 (287)
                      ...+.|.++ +|+.+++.+...++....+|+.--..+...+.          +++++.+++.++... +-+..+|+.-.-
T Consensus        38 ~~~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           38 QKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            334566665 79999999999887665777765555544443          678899999998764 336777877766


Q ss_pred             HHhccC--ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC-HHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc--
Q 023133           77 AFIMTD--DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ-IEKALLIFDHIKGLKCKPDLITYNIVLDILGRV--  151 (287)
Q Consensus        77 ~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--  151 (287)
                      ++...+  .+++++.+++.+.+.. +.+..+|+.-...+...|. ++++++.++++.+.. +.+...|+.....+.+.  
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~  194 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHP  194 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhh
Confidence            666667  4899999999999987 6788888888888888888 699999999998765 45677787766665554  


Q ss_pred             ------------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc-----------CchHHHHHHHHHHhhCCCcCCH
Q 023133          152 ------------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI-----------RRLDLCLIYFREMGESGIKPDL  208 (287)
Q Consensus       152 ------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~  208 (287)
                                  +.++++++.+.......+. |...|+.+-..+.+.           +.++++++.+.++.+.  .||.
T Consensus       195 ~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~  271 (331)
T 3dss_A          195 QPDSGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN  271 (331)
T ss_dssp             CC------CCCHHHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             ccccccccccchHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc
Confidence                        4588999999999887654 777777655555444           4578899999999876  4553


Q ss_pred             HHHHHHH-----HHHHhcCCHHHHHHHHHHHHhC
Q 023133          209 LTYTALI-----DSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       209 ~~~~~l~-----~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                       .|+.+.     ......|..+++...+.++.+-
T Consensus       272 -~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          272 -KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             -HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             -chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence             233222     1222467788899999999874

>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=98.92  E-value=1.8e-08  Score=67.34  Aligned_cols=95  Identities=8%  Similarity=0.012  Sum_probs=51.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                      .+..+...+.+.|++++|...|++..+.... +...|..+..++.+.|++++|...+++..+.. +.+...+..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            4445555555666666666666655554322 44555555555555566666665555555442 223445555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 023133          220 RTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~  236 (287)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555555554

>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=98.88  E-value=6.6e-08  Score=63.29  Aligned_cols=99  Identities=11%  Similarity=0.081  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLK  254 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  254 (287)
                      .+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..++.
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            33344444444444444444444444332 2233444444444445555555555555444431 123344444444555


Q ss_pred             hcCChHHHHHHHHHHhhcCCC
Q 023133          255 KMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       255 ~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      ..|++++|.+.+++.....|+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~  104 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEAN  104 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTT
T ss_pred             HHhhHHHHHHHHHHHHHcCCC
Confidence            555555555555555444443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.86  E-value=5.6e-08  Score=68.18  Aligned_cols=99  Identities=2%  Similarity=-0.155  Sum_probs=84.6

Q ss_pred             CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHH
Q 023133          137 DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALID  216 (287)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  216 (287)
                      +...+..+...+.+.|++++|+..|++..+.... +...|..+..+|.+.|++++|...+++..+.. +.+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIAPA-NPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            4567888888999999999999999998887543 67888889999999999999999999988764 446778888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 023133          217 SFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +|...|++++|.+.|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999998864

>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=98.86  E-value=1.7e-07  Score=62.42  Aligned_cols=95  Identities=13%  Similarity=0.031  Sum_probs=46.0

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      .+..+...+...|++++|...|++.++.. +.+...|..+..+|.+.|++++|...+++..+.. +.+...|..+..++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444444555555555555555555443 3344455555555555555555555555544432 223334444445555


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKE  166 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~  166 (287)
                      ..|++++|...|++..+
T Consensus        84 ~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           84 AVKEYASALETLDAART  100 (126)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHH
Confidence            55555555555554443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.85  E-value=3e-08  Score=67.81  Aligned_cols=96  Identities=7%  Similarity=-0.057  Sum_probs=56.5

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..+..+...+.+.|++++|+..|++..... +.+...|..+..++...|++++|...+++..+.. |.+...+..+..+|
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            445555556666666666666666665542 2345555555666666666666666666666554 34455555566666


Q ss_pred             HhcCCHHHHHHHHHHHhc
Q 023133          114 AKSRQIEKALLIFDHIKG  131 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~  131 (287)
                      ...|++++|...|++..+
T Consensus        97 ~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            666666666666665544

>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=98.85  E-value=2.4e-07  Score=60.48  Aligned_cols=22  Identities=14%  Similarity=0.120  Sum_probs=8.6

Q ss_pred             HHHHHhhcCChhHHHHHHHHHH
Q 023133           39 VLVASAETNDIDLSFQILKDLL   60 (287)
Q Consensus        39 l~~~~~~~~~~~~a~~~~~~~~   60 (287)
                      +...+...|++++|...+++..
T Consensus        10 ~~~~~~~~~~~~~A~~~~~~~~   31 (118)
T 1elw_A           10 KGNKALSVGNIDDALQCYSEAI   31 (118)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHH
Confidence            3333333344444444443333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.85  E-value=1.1e-06  Score=71.63  Aligned_cols=196  Identities=10%  Similarity=-0.010  Sum_probs=142.8

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc-----------------hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-C
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-----------------NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL-S   67 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~   67 (287)
                      ...+.+.|++++|++.|..+.+......                 .++..+...|...|++++|.+.+.++...-... +
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            3557889999999999999987655432                 137789999999999999999999886532121 2


Q ss_pred             H----HHHHHHHHHHhccCChHHHHHHHHHHHhc----CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CC
Q 023133           68 S----DCYTNFARAFIMTDDCTQLLIFIEEVVQI----ASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KC  134 (287)
Q Consensus        68 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~  134 (287)
                      .    ...+.+...+...|+++.+..+++.....    +.. .-..++..+...|...|++++|..+++++...    +-
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    12333444555678999999999877542    222 23567888999999999999999999887532    11


Q ss_pred             CC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc----CCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhh
Q 023133          135 KP-DLITYNIVLDILGRVGRVNDMLNEFASMKEA----GVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       135 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      .+ ...++..++..|...|++++|..+++.....    +.+|.  ...+..+...+...+++++|...|.+..+
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            12 2347888999999999999999999887542    11111  24566777788889999999988877653

>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=98.85  E-value=5.9e-08  Score=65.68  Aligned_cols=99  Identities=9%  Similarity=-0.047  Sum_probs=68.4

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          136 PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       136 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      .+...+..+...+...|++++|...|+........ +...|..+..++...|++++|...+++..+.. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            35566677777777777777777777777665432 45667777777777777777777777776653 33556677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 023133          216 DSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      .++...|++++|...|++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            777777777777777777664

>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=98.84  E-value=1.2e-07  Score=68.63  Aligned_cols=96  Identities=15%  Similarity=0.126  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      ..+..+..++...|++++|...+++.++.. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+..++
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            455666666777777777777777776664 4556666667777777777777777777665542 23445566666666


Q ss_pred             HhcCCHHHHH-HHHHHHHH
Q 023133          149 GRVGRVNDML-NEFASMKE  166 (287)
Q Consensus       149 ~~~~~~~~a~-~~~~~~~~  166 (287)
                      ...++.+++. ..+..+..
T Consensus       167 ~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          167 NKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHHhc
Confidence            6666655555 44444433

>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=98.82  E-value=8.4e-08  Score=64.21  Aligned_cols=101  Identities=14%  Similarity=0.164  Sum_probs=68.3

Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCcc----hHhHH
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ--IRPS----IYVYR  247 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~----~~~~~  247 (287)
                      .++..+...+.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|++.+++.++..  ..++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345566677777777777777777776653 3456667777777777777777777777776431  0111    23566


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          248 SLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       248 ~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .+..++...|++++|.+.|++.....|+
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            6677777888888888888888776654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.81  E-value=7e-08  Score=64.00  Aligned_cols=99  Identities=10%  Similarity=-0.005  Sum_probs=63.0

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHh
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKK  255 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  255 (287)
                      +..+...+.+.|++++|...+++..+.. +.+...+..+..++...|++++|+..|++..+.. +.+...+..+..++..
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            4445556667777777777777776653 3355666667777777777777777777776642 2245566667777777


Q ss_pred             cCChHHHHHHHHHHhhcCCCC
Q 023133          256 MGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       256 ~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .|++++|...|+++.+..|+.
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~  118 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQY  118 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-----
T ss_pred             cCCHHHHHHHHHHHHHhCcCC
Confidence            777777777777777666654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.81  E-value=1.1e-07  Score=61.66  Aligned_cols=26  Identities=12%  Similarity=-0.077  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      .+..+...+...|++++|...+++..
T Consensus        42 ~~~~~a~~~~~~~~~~~A~~~~~~a~   67 (112)
T 2kck_A           42 YWLMKGKALYNLERYEEAVDCYNYVI   67 (112)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            33333333344444444444443333

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.80  E-value=2.2e-07  Score=63.56  Aligned_cols=99  Identities=10%  Similarity=0.006  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHH
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD----LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLI  250 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li  250 (287)
                      .+..+...+...|++++|...|++..+.  .|+    ...+..+..+|...|++++|...+++..+.. +.+...+..+.
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  106 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHH
Confidence            3344444444444444444444444433  222    2344444444444555555555554444321 12333444444


Q ss_pred             HHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          251 DNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .++...|++++|...|++.....|+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~~p~~  132 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSLEPKN  132 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCc
Confidence            44455555555555555554444443

>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=98.80  E-value=2.1e-07  Score=62.28  Aligned_cols=105  Identities=15%  Similarity=0.118  Sum_probs=63.8

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCC--CCc----HHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS--PES----IIVVNR  108 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~  108 (287)
                      ++..+...+.+.|++++|+..|++.++.. +-+...|..+..++...|++++|++.+++.++...  .++    ..+|..
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            45566666667777777777777666542 23455666666667777777777777766655431  111    235666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHH
Q 023133          109 IIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYN  142 (287)
Q Consensus       109 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  142 (287)
                      +..++...|++++|++.|++..+.  .|+.....
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            667777777777777777766553  34544433

>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=98.76  E-value=3.9e-07  Score=61.53  Aligned_cols=96  Identities=7%  Similarity=0.033  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            3344444444444555555555555444443 2334444445555555555555555554444432 2233344444444


Q ss_pred             HHhcCCHHHHHHHHHHHH
Q 023133          148 LGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~  165 (287)
                      +...|++++|...|+...
T Consensus        87 ~~~~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAY  104 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHH
Confidence            555555555555554443

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.75  E-value=3.9e-07  Score=63.78  Aligned_cols=94  Identities=13%  Similarity=0.044  Sum_probs=41.1

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           71 YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        71 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      +..+...+...|++++|+..|++.++.. +.+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..+|..
T Consensus        14 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   91 (164)
T 3sz7_A           14 LKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLARFD   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3333444444444444444444444433 2334444444444444444444444444444332 1223344444444444


Q ss_pred             cCCHHHHHHHHHHHHH
Q 023133          151 VGRVNDMLNEFASMKE  166 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~  166 (287)
                      .|++++|...|++..+
T Consensus        92 ~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           92 MADYKGAKEAYEKGIE  107 (164)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHH
Confidence            4444444444444433

>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=98.75  E-value=2.2e-08  Score=82.47  Aligned_cols=89  Identities=11%  Similarity=0.044  Sum_probs=46.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ..+|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|...|++++|...|++..+.... +...+..+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~  394 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMC  394 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            3455555555666666666666665555442 224445555555666666666666666665554322 33455555555


Q ss_pred             HHhcCchHHHH
Q 023133          183 LRKIRRLDLCL  193 (287)
Q Consensus       183 ~~~~~~~~~a~  193 (287)
                      +.+.++.+++.
T Consensus       395 ~~~~~~~~~a~  405 (457)
T 1kt0_A          395 QKKAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555444

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.75  E-value=7.8e-07  Score=72.50  Aligned_cols=197  Identities=9%  Similarity=-0.041  Sum_probs=95.6

Q ss_pred             HHHHHhhcCChhHHHHHHHHHHHhcCCCCH----------------HHHHHHHHHHhccCChHHHHHHHHHHHhcCCC-C
Q 023133           39 VLVASAETNDIDLSFQILKDLLVSSRTLSS----------------DCYTNFARAFIMTDDCTQLLIFIEEVVQIASP-E  101 (287)
Q Consensus        39 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~  101 (287)
                      -...+.+.|++++|++.|.+..+.......                ..+..+...|...|++++|.+.+..+.+.-.. +
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            345566777778887777777664322111                12445556666666666666666555432111 1


Q ss_pred             cH----HHHHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CC-
Q 023133          102 SI----IVVNRIIFAFAKSRQIEKALLIFDHIKG----LKCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKEA--GV-  169 (287)
Q Consensus       102 ~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~-  169 (287)
                      +.    .+.+.+...+...|++++|..++.....    .+..+. ..++..+...|...|++++|..+++++...  +. 
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            11    1222233333344556666666555432    111121 224455555666666666666666555332  11 


Q ss_pred             -CC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          170 -VP-DFISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKPD--LLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       170 -~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                       .+ ...++..++..|...|++++|..++++....    +.++.  ...+..+...+...|++++|...|.+..
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence             01 1234555555566666666666666554321    11111  1233444444555566666655555544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=8.8e-07  Score=60.48  Aligned_cols=96  Identities=14%  Similarity=0.065  Sum_probs=42.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC----HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD----LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNT  178 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  178 (287)
                      ...+..+...+...|++++|...|++..+.  .|+    ...+..+..+|...|++++|...++...+.... +...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHH
Confidence            344444444444455555555555444433  222    233444444444444444444444444433211 2333444


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhh
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      +..++...|++++|...+++..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            44444444444444444444443

>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=98.75  E-value=2.6e-07  Score=61.57  Aligned_cols=55  Identities=7%  Similarity=0.151  Sum_probs=23.5

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHI  129 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  129 (287)
                      +...+...|+++.|...+++..+.. +.+..++..+...+...|++++|...+++.
T Consensus        10 l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~   64 (131)
T 1elr_A           10 LGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            3334444444444444444444332 233334444444444444444444444443

>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=98.74  E-value=1.3e-07  Score=63.17  Aligned_cols=97  Identities=14%  Similarity=0.123  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC--CC----hhHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV--PD----FISYN  177 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~  177 (287)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+....  ++    ..++.
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            344445555555555555555555554432 223444455555555555555555555554433110  11    33344


Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhh
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGE  201 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~  201 (287)
                      .+..++...|++++|.+.+++..+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH
Confidence            444444444444444444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.74  E-value=3.3e-07  Score=60.73  Aligned_cols=96  Identities=6%  Similarity=0.015  Sum_probs=64.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFA  114 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  114 (287)
                      .+..+...+.+.|++++|+..+++.++.. +.+...+..+..++...|++++|+..+++.++.. |.+...+..+..+|.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            45556666777777777777777776653 3356666667777777777777777777777665 445666667777777


Q ss_pred             hcCCHHHHHHHHHHHhcC
Q 023133          115 KSRQIEKALLIFDHIKGL  132 (287)
Q Consensus       115 ~~~~~~~a~~~~~~~~~~  132 (287)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777777777777776654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.73  E-value=2e-08  Score=66.26  Aligned_cols=91  Identities=14%  Similarity=0.095  Sum_probs=41.6

Q ss_pred             CchHHHHHHHHHHhhCC--CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHH
Q 023133          187 RRLDLCLIYFREMGESG--IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMT  264 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  264 (287)
                      |++++|...|++..+.+  -+.+...+..+..+|...|++++|...|++..+.. +-+...+..+..++...|++++|..
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            44455555555554432  11223344445555555555555555555555432 2234444445555555555555555


Q ss_pred             HHHHHhhcCCCCCC
Q 023133          265 IFEEMNSSLSDLAG  278 (287)
Q Consensus       265 ~~~~~~~~~~~~~~  278 (287)
                      .+++.....|+++.
T Consensus        83 ~~~~al~~~p~~~~   96 (117)
T 3k9i_A           83 LLLKIIAETSDDET   96 (117)
T ss_dssp             HHHHHHHHHCCCHH
T ss_pred             HHHHHHHhCCCcHH
Confidence            55555554444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.72  E-value=1.5e-07  Score=65.23  Aligned_cols=132  Identities=14%  Similarity=0.073  Sum_probs=71.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC----hhHHHHHHHHHHhcCchHHHHHHHHHHhhC----CCcC-CHHH
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD----FISYNTLLNNLRKIRRLDLCLIYFREMGES----GIKP-DLLT  210 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~  210 (287)
                      +..+...+...|++++|...+++..+.... ++    ..++..+...+...|++++|...+++..+.    +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444444555555555555444322100 01    124455555566666666666666555431    1011 1335


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCc-chHhHHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          211 YTALIDSFGRTGNIEESLRLFNDMKQQ----QIRP-SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       211 ~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      +..+...+...|++++|.+.+++..+.    +..+ ....+..+...+...|++++|.+.+++..+.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            556666777777777777777766532    1111 1345666677777788888888888777554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.72  E-value=1.4e-06  Score=57.97  Aligned_cols=92  Identities=9%  Similarity=0.036  Sum_probs=42.6

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcCCCCH---HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCc---HHHHHHHHH
Q 023133           38 CVLVASAETNDIDLSFQILKDLLVSSRTLSS---DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPES---IIVVNRIIF  111 (287)
Q Consensus        38 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  111 (287)
                      .+...+...|++++|...|++..+.... +.   ..+..+..++...|++++|...++++.+.. +.+   ..++..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            3444444455555555555554443211 11   234444444555555555555555554443 122   334444555


Q ss_pred             HHHhcCCHHHHHHHHHHHhc
Q 023133          112 AFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus       112 ~~~~~~~~~~a~~~~~~~~~  131 (287)
                      ++...|++++|...|+++.+
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555544

>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=98.69  E-value=4.4e-07  Score=75.10  Aligned_cols=118  Identities=10%  Similarity=0.019  Sum_probs=54.1

Q ss_pred             HHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHH
Q 023133           42 ASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEK  121 (287)
Q Consensus        42 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  121 (287)
                      .+.+.|++++|++.+++.++.. +.+...+..+..++.+.|++++|++.+++..+.. +.+..++..+..+|.+.|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            4445555555555555555432 2234445555555555555555555555555543 3344455555555555555555


Q ss_pred             HHHHHHHHhcCCCCCCHhhHHHHHHH--HHhcCCHHHHHHHHH
Q 023133          122 ALLIFDHIKGLKCKPDLITYNIVLDI--LGRVGRVNDMLNEFA  162 (287)
Q Consensus       122 a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~  162 (287)
                      |.+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            555555544432 1122233333333  444455555555544

>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=98.69  E-value=7.6e-08  Score=79.63  Aligned_cols=117  Identities=12%  Similarity=0.009  Sum_probs=55.5

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHH
Q 023133          148 LGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEES  227 (287)
Q Consensus       148 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  227 (287)
                      +.+.|++++|.+.|++..+.... +..+|..+..++.+.|++++|.+.+++..+.. +.+...+..+..+|...|++++|
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            34455555555555555444221 34455555555555555555555555555442 22344555555555555555555


Q ss_pred             HHHHHHHHhCCCCcchHhHHHHHHH--HHhcCChHHHHHHHH
Q 023133          228 LRLFNDMKQQQIRPSIYVYRSLIDN--LKKMGKVDLAMTIFE  267 (287)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~  267 (287)
                      .+.|++..+.. +.+...+..+..+  +.+.|++++|.+.++
T Consensus        94 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           94 LRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            55555555431 1122233333333  455555555555555

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.68  E-value=4.5e-07  Score=60.48  Aligned_cols=93  Identities=17%  Similarity=0.017  Sum_probs=51.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh---hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCC---HHHHHHHHH
Q 023133          143 IVLDILGRVGRVNDMLNEFASMKEAGVVPDF---ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPD---LLTYTALID  216 (287)
Q Consensus       143 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~  216 (287)
                      .+...+...|++++|...|+...+.... +.   ..+..+..++...|++++|...++++.+.. +.+   ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHH
Confidence            3445555666666666666666554321 12   345555556666666666666666665442 111   344555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhC
Q 023133          217 SFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       217 ~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      ++...|++++|...|+++.+.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            666666666666666665543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.67  E-value=5.6e-05  Score=62.71  Aligned_cols=205  Identities=10%  Similarity=-0.004  Sum_probs=116.6

Q ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHH-HHHHHHh
Q 023133           52 SFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKAL-LIFDHIK  130 (287)
Q Consensus        52 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~  130 (287)
                      +..+|++++.. .+.+...|...+.-+.+.|+.+.|..++++.+..  |.+...|..    |....+.++.. .+.+...
T Consensus       198 v~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~  270 (493)
T 2uy1_A          198 MHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYS  270 (493)
T ss_dssp             HHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC
T ss_pred             HHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHH
Confidence            34455555443 2334555555555556666666666666666665  333333322    11111111111 1111110


Q ss_pred             cCC-----C---CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh-cCchHHHHHHHHHHhh
Q 023133          131 GLK-----C---KPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK-IRRLDLCLIYFREMGE  201 (287)
Q Consensus       131 ~~~-----~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~  201 (287)
                      ...     .   ......|...+....+.+..+.|..+|+.. .. ...+...|......-.. .++.+.|..+|+...+
T Consensus       271 ~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~  348 (493)
T 2uy1_A          271 MGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLL  348 (493)
T ss_dssp             ----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHH
T ss_pred             hhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence            000     0   001134555555556677889999999988 32 12233444332222222 2368999999998876


Q ss_pred             CCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          202 SGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       202 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      .. +-+...+...++.....|+.+.|..+|+++.     .....|...+.--...|+.+.+.++++++..
T Consensus       349 ~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          349 KH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            42 2234455666777778899999999999873     2567788888777778999999999988864

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.63  E-value=3.9e-07  Score=63.16  Aligned_cols=133  Identities=10%  Similarity=0.043  Sum_probs=90.1

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-CC----HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC----C-CcH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-LS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS----P-ESI  103 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~  103 (287)
                      .++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++..+...    + ...
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            46777777777888888888887776643211 11    13566677777888888888888877654321    1 124


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCC-CHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGL----KCKP-DLITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      .++..+...+...|++++|...+++..+.    +..+ ....+..+...+...|++++|...+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            56777788888888888888888776532    1111 133567777888888888888888887654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.63  E-value=2e-07  Score=65.15  Aligned_cols=99  Identities=6%  Similarity=-0.072  Sum_probs=66.6

Q ss_pred             HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--------CC---------CCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          138 LITYNIVLDILGRVGRVNDMLNEFASMKEA--------GV---------VPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      ...+......+.+.|++++|+..|......        ..         +.+...|..+..+|.+.|++++|...+++.+
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            445677777888888888888888887654        00         0123456666667777777777777777776


Q ss_pred             hCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          201 ESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       201 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      +.. +.+...|..+..+|...|++++|...|++..+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            653 345566667777777777777777777776654

>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=98.57  E-value=2e-06  Score=70.77  Aligned_cols=150  Identities=8%  Similarity=-0.016  Sum_probs=102.8

Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC---------------HhhHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD---------------LITYNIVLD  146 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---------------~~~~~~l~~  146 (287)
                      +++++|...|+...+.. +.....+..+...|.+.|++++|...|++..+.. +.+               ...|..+..
T Consensus       248 ~~~~~A~~~~~~~~~~~-~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~  325 (457)
T 1kt0_A          248 KSFEKAKESWEMDTKEK-LEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAM  325 (457)
T ss_dssp             EEEECCCCGGGSCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCcchhhcCHHHH-HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHH
Confidence            34444444443333222 2345556666666666666666666666665432 111               467888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH
Q 023133          147 ILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE  226 (287)
Q Consensus       147 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  226 (287)
                      +|.+.|++++|+..+++..+.... +...|..+..+|...|++++|...|++..+.. +-+...+..+..++.+.++.++
T Consensus       326 ~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~  403 (457)
T 1kt0_A          326 CYLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNE  403 (457)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999887543 67888889999999999999999999998763 3345578888888888888887


Q ss_pred             HHH-HHHHHH
Q 023133          227 SLR-LFNDMK  235 (287)
Q Consensus       227 a~~-~~~~~~  235 (287)
                      +.+ .+..|.
T Consensus       404 a~~~~~~~~f  413 (457)
T 1kt0_A          404 RDRRIYANMF  413 (457)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHHH
Confidence            764 455554

>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=98.57  E-value=2.1e-06  Score=68.52  Aligned_cols=121  Identities=12%  Similarity=0.037  Sum_probs=65.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcC---------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIA---------------SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC  134 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  134 (287)
                      .+..+...+.+.|++++|+..+++.++.-               .+.+..+|..+..+|.+.|++++|+..+++..+.. 
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            35556666777777777777777766520               12234455555666666666666666666655542 


Q ss_pred             CCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHH
Q 023133          135 KPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLC  192 (287)
Q Consensus       135 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  192 (287)
                      +.+...|..+..+|...|++++|...|++..+.... +...+..+...+...++.+++
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHH
Confidence            223445555555566666666666666655554321 334444444444444444433

>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=98.55  E-value=1e-06  Score=70.32  Aligned_cols=89  Identities=13%  Similarity=0.155  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH
Q 023133           68 SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI  147 (287)
Q Consensus        68 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  147 (287)
                      ...|..+..++.+.|++++|+..++++++.. +.+...+..+..+|...|++++|...|++..+.. +.+...+..+..+
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~  350 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4455666666666677777777776666654 3455666666666777777777777776665542 2244455555555


Q ss_pred             HHhcCCHHHHH
Q 023133          148 LGRVGRVNDML  158 (287)
Q Consensus       148 ~~~~~~~~~a~  158 (287)
                      +...++.+++.
T Consensus       351 ~~~~~~~~~a~  361 (370)
T 1ihg_A          351 KQKIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555555554

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.54  E-value=4.2e-07  Score=71.71  Aligned_cols=154  Identities=10%  Similarity=0.031  Sum_probs=82.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN  182 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  182 (287)
                      ...+..+...+.+.|++++|...|++..+.  .|+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            455666777777778888888888776654  343321       223333343332221          1377888899


Q ss_pred             HHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHH-HHhcCChH
Q 023133          183 LRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDN-LKKMGKVD  260 (287)
Q Consensus       183 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~-~~~~g~~~  260 (287)
                      +.+.|++++|...+++.++.. +.+...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999998764 446788999999999999999999999998864  343 4445545444 33456778


Q ss_pred             HHHHHHHHHhhcCCCCCC
Q 023133          261 LAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       261 ~a~~~~~~~~~~~~~~~~  278 (287)
                      .+...|++|....|..+.
T Consensus       317 ~a~~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          317 KQKEMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ------------------
T ss_pred             HHHHHHHHhhCCCCCCCC
Confidence            889999999888876654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.53  E-value=3e-06  Score=59.07  Aligned_cols=98  Identities=12%  Similarity=0.023  Sum_probs=55.7

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhc-----------------CCCCHHHHHHHHHHHhccCChHHHHHHHHHHHh
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSS-----------------RTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   96 (287)
                      ..+......+.+.|++++|+..|.+.+..-                 .+.+...|..+..++.+.|++++|+..+++.++
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            356667777778888888888887776530                 011123444455555555555555555555555


Q ss_pred             cCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           97 IASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        97 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .. +.+...|..+..+|...|++++|...|++..+.
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            44 344455555555555555555555555555443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.50  E-value=1.7e-06  Score=59.47  Aligned_cols=69  Identities=14%  Similarity=0.202  Sum_probs=51.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCcc-hHhH----HHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          210 TYTALIDSFGRTGNIEESLRLFNDMKQQ-----QIRPS-IYVY----RSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       210 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~-~~~~----~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .|..+..++.+.|++++|+..+++.++.     .+.|+ ...|    .....++...|++++|+..|++.....|++..
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~  137 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKG  137 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHH
Confidence            6777777888888888888888877763     11444 4566    77888888888899998888888877776554

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.50  E-value=2e-05  Score=66.53  Aligned_cols=174  Identities=10%  Similarity=-0.008  Sum_probs=126.3

Q ss_pred             ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcC
Q 023133           83 DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ----------IEKALLIFDHIKGLKCKPDLITYNIVLDILGRVG  152 (287)
Q Consensus        83 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (287)
                      ..++|++.++++++.. |.+..+|+.--..+.+.|+          ++++.+.++.+.+.. +.+..+|+.-.-++.+.+
T Consensus        44 ~~eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           44 LDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            3456788888888776 5566777776666666666          888888888887664 446667877777777778


Q ss_pred             --CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC-chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhc--------
Q 023133          153 --RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIR-RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRT--------  221 (287)
Q Consensus       153 --~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------  221 (287)
                        +++++++.++++.+.... +..+|+.-...+.+.| .++++.+.+.++.+.. +-|...|+.....+.+.        
T Consensus       122 ~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          122 EPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             cccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccc
Confidence              678888888888887655 7778877777777777 7888888888888765 44677777766666552        


Q ss_pred             ------CCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHH
Q 023133          222 ------GNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDL  261 (287)
Q Consensus       222 ------g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  261 (287)
                            +.++++++.+++..+.. +-|...|..+-..+.+.++.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCccc
Confidence                  45788888888888653 3456677777666666666444

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.49  E-value=3e-07  Score=60.44  Aligned_cols=26  Identities=8%  Similarity=-0.013  Sum_probs=10.3

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLL   60 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~   60 (287)
                      ++..+..++...|++++|+..+++.+
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al   54 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGV   54 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33333333334444444444443333

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.48  E-value=1.2e-06  Score=69.10  Aligned_cols=96  Identities=7%  Similarity=-0.017  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-H
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-L  183 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~  183 (287)
                      .|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|...|++++|...|++..+.... +...+..+... .
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-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAE  309 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            56667777777777777777777766543 235556777777777777777777777776554321 33344444333 2


Q ss_pred             HhcCchHHHHHHHHHHhhC
Q 023133          184 RKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       184 ~~~~~~~~a~~~~~~~~~~  202 (287)
                      ...+..+.+...|..|...
T Consensus       310 ~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          310 QEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------------
T ss_pred             HHHHHHHHHHHHHHHhhCC
Confidence            2345566666777766544

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.48  E-value=1.9e-06  Score=71.12  Aligned_cols=123  Identities=8%  Similarity=-0.057  Sum_probs=76.0

Q ss_pred             hcCChhHHHHHHHHHHHhc---CCC----CHHHHHHHHHHHhccCChHHHHHHHHHHHhc-----C--CCCcHHHHHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSS---RTL----SSDCYTNFARAFIMTDDCTQLLIFIEEVVQI-----A--SPESIIVVNRII  110 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~---~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~  110 (287)
                      ..|++++|+.++++.++..   +.|    ...+++.|..+|...|++++|..++++.++.     |  .+....+++.|.
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            5567777777766665431   112    1345666777777777777777777665532     2  223456677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHhc-----CCC-CCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          111 FAFAKSRQIEKALLIFDHIKG-----LKC-KPD-LITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      ..|...|++++|+.++++..+     .|. .|+ ..+.+.+-.++...+.+++|..++..+++.
T Consensus       401 ~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          401 LTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            778888888887777766542     231 122 234556666677777788888888777653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.47  E-value=2.7e-05  Score=65.71  Aligned_cols=176  Identities=11%  Similarity=0.057  Sum_probs=136.6

Q ss_pred             hcCC-hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCC----------hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133           11 KAGN-VSAAVRLLQSLRDKNIFLPNAYNCVLVASAETND----------IDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus        11 ~~g~-~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      +.|+ .++|++.++.+...++....+|+.--.++...|+          ++++++.++.+.+.. +-+..+|+.-.-++.
T Consensus        40 ~~~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           40 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (567)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            3444 4677999999999887666888887777777777          899999999998864 336777887777777


Q ss_pred             ccC--ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhc-----
Q 023133           80 MTD--DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR-QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRV-----  151 (287)
Q Consensus        80 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  151 (287)
                      +.+  +++++++.++++.+.. +.+..+|+.-...+.+.| .++++.+.++++.+.. +-+...|+.....+.+.     
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccc
Confidence            888  6799999999999987 677888888888888888 8999999999988775 34667787776666553     


Q ss_pred             ---------CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchH
Q 023133          152 ---------GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       152 ---------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  190 (287)
                               +.++++++.+......... |...|...-..+.+.+..+
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~  243 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHD  243 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCS
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCcc
Confidence                     5578899999888876544 6777887777777666643

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.45  E-value=6.2e-05  Score=62.48  Aligned_cols=204  Identities=11%  Similarity=-0.005  Sum_probs=138.5

Q ss_pred             hHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH
Q 023133           16 SAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVV   95 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   95 (287)
                      +.+..+|++.....+..+..|...+..+.+.|+.+.|..++++....  +.+...+..    +....+.++.   ++.+.
T Consensus       196 ~Rv~~~ye~al~~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~---~~~l~  266 (493)
T 2uy1_A          196 SRMHFIHNYILDSFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAV---YGDLK  266 (493)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHH---HHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHH---HHHHH
Confidence            45677899988877666688988899999999999999999999987  333333322    2221111121   22222


Q ss_pred             hcC------------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh-cCCHHHHHHHHH
Q 023133           96 QIA------------SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR-VGRVNDMLNEFA  162 (287)
Q Consensus        96 ~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~  162 (287)
                      +.-            ......+|...+....+.++.+.|..+|++. +.. ..+...|......-.. .++++.|..+|+
T Consensus       267 ~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife  344 (493)
T 2uy1_A          267 RKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFS  344 (493)
T ss_dssp             HHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHH
T ss_pred             HHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHH
Confidence            110            0112356777888887889999999999999 321 1233344322222222 336999999999


Q ss_pred             HHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          163 SMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       163 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ...+.... +...+...+....+.|+.+.|..+|+++.+     ....|...+..-...|+.+.+.+++++..+
T Consensus       345 ~al~~~~~-~~~~~~~yid~e~~~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          345 SGLLKHPD-STLLKEEFFLFLLRIGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            98875322 344556677777888999999999999732     467788888877888999999999988874

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.44  E-value=1.2e-05  Score=54.51  Aligned_cols=110  Identities=10%  Similarity=-0.017  Sum_probs=52.6

Q ss_pred             CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHH
Q 023133          118 QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCL  193 (287)
Q Consensus       118 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  193 (287)
                      ++++|.+.|++..+.| .|+..    |...|...+.+++|.+.|++..+.|   +...+..+...|..    .++.++|.
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            3445555555554443 12221    3344444444555555555554443   33444444444444    45555555


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGR----TGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  238 (287)
                      ++|++..+.|   +...+..|...|..    .+++++|.++|++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            5555555443   33444445555554    455555555555555543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.40  E-value=1.1e-05  Score=55.42  Aligned_cols=94  Identities=11%  Similarity=0.031  Sum_probs=47.8

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC------CH-----HHHHHHHHHHhccCChHHHHHHHHHHHhc------
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTL------SS-----DCYTNFARAFIMTDDCTQLLIFIEEVVQI------   97 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------   97 (287)
                      .+......+.+.|++++|+..|++.++.....      +.     ..|..+..++.+.|++++|+..+++.++.      
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            34555556667777777777777776543220      11     14444555555555555555555555443      


Q ss_pred             -CCCCcHHHH----HHHHHHHHhcCCHHHHHHHHHHH
Q 023133           98 -ASPESIIVV----NRIIFAFAKSRQIEKALLIFDHI  129 (287)
Q Consensus        98 -~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~  129 (287)
                       . |.+...|    .....++...|++++|+..|++.
T Consensus        93 ~~-pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kA  128 (159)
T 2hr2_A           93 LN-QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKV  128 (159)
T ss_dssp             TT-STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHH
Confidence             3 2233344    44444444444444444444444

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=98.39  E-value=2.7e-05  Score=52.68  Aligned_cols=112  Identities=9%  Similarity=-0.070  Sum_probs=94.2

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCHHH
Q 023133          151 VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR----TGNIEE  226 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  226 (287)
                      .+++++|...|++..+.|. |+.  .  +...|...+..++|.++|++..+.|   +...+..|...|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a--~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFG--C--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTH--H--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhh--h--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            3468999999999998873 333  3  7777888888999999999998875   66788888888988    899999


Q ss_pred             HHHHHHHHHhCCCCcchHhHHHHHHHHHh----cCChHHHHHHHHHHhhcC
Q 023133          227 SLRLFNDMKQQQIRPSIYVYRSLIDNLKK----MGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       227 a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~  273 (287)
                      |.++|++..+.|   +...+..|...|..    .+++++|.++|++..+..
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            999999999876   66777888888888    899999999999997763

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.34  E-value=3.5e-06  Score=69.53  Aligned_cols=125  Identities=8%  Similarity=-0.046  Sum_probs=95.7

Q ss_pred             HhccCChHHHHHHHHHHHhc-----C--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc-----CCC-CCC-HhhHHH
Q 023133           78 FIMTDDCTQLLIFIEEVVQI-----A--SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKG-----LKC-KPD-LITYNI  143 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~-~~~-~~~~~~  143 (287)
                      +...|++++|+.++++.++.     |  .+....+++.|...|...|++++|+.++++..+     .|. .|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44679999999999887653     2  123467899999999999999999999987653     221 233 347899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHH-----cCCC-CC-hhHHHHHHHHHHhcCchHHHHHHHHHHhhC
Q 023133          144 VLDILGRVGRVNDMLNEFASMKE-----AGVV-PD-FISYNTLLNNLRKIRRLDLCLIYFREMGES  202 (287)
Q Consensus       144 l~~~~~~~~~~~~a~~~~~~~~~-----~~~~-~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  202 (287)
                      |...|...|++++|..++++..+     .|.. |+ ..+...+-.++...+.+++|..+|.++.+.
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999998753     2322 22 345566777888899999999999998763

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.29  E-value=8.5e-07  Score=57.36  Aligned_cols=93  Identities=10%  Similarity=0.091  Sum_probs=53.9

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-------hH
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-------IY  244 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-------~~  244 (287)
                      +...+..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|++.+++..+.  .|+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            34455566666666677777777666666543 335556666666777777777777777776654  233       33


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHH
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~  267 (287)
                      .+..+..++...|++++|...++
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhHHH
Confidence            44444445555555554444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.24  E-value=6e-06  Score=53.82  Aligned_cols=80  Identities=11%  Similarity=0.102  Sum_probs=59.6

Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|+..|++..+.... +...+..+...+...|++++|...+++..+.. +.+...|..+..+|...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQGTD-NMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTTCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            466677777665432 56777778888888888888888888887653 3456677788888888888888888888877


Q ss_pred             hC
Q 023133          236 QQ  237 (287)
Q Consensus       236 ~~  237 (287)
                      +.
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.22  E-value=1.2e-06  Score=56.55  Aligned_cols=62  Identities=6%  Similarity=0.066  Sum_probs=31.2

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .+..+...+...|++++|...+++..+.. +.+..++..+..++.+.|++++|...+++..+.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34444444555555555555555555443 334444555555555555555555555555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.19  E-value=2.1e-05  Score=51.21  Aligned_cols=80  Identities=13%  Similarity=-0.024  Sum_probs=49.9

Q ss_pred             HHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHh
Q 023133           17 AAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQ   96 (287)
Q Consensus        17 ~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~   96 (287)
                      +|+..|++..+.++..+..+..+...+...|++++|+..+++.+... +.+...+..+..++...|++++|...|++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45666666666554444666666666777777777777776666543 23455566666666666777777666666654


Q ss_pred             c
Q 023133           97 I   97 (287)
Q Consensus        97 ~   97 (287)
                      .
T Consensus        82 ~   82 (115)
T 2kat_A           82 A   82 (115)
T ss_dssp             H
T ss_pred             h
Confidence            4

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.12  E-value=5e-05  Score=46.75  Aligned_cols=59  Identities=8%  Similarity=0.106  Sum_probs=22.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                      +..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..
T Consensus        12 ~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A           12 WYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3333333444444444444443333321 1122333333333444444444444444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.11  E-value=4.5e-05  Score=46.97  Aligned_cols=62  Identities=13%  Similarity=0.275  Sum_probs=32.4

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .+..+...+...|++++|...+++..+.. +.+..++..+...+.+.|++++|...+++..+.
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            34444455555555555555555555443 334445555555555555555555555555443

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.08  E-value=2e-05  Score=54.04  Aligned_cols=55  Identities=22%  Similarity=0.221  Sum_probs=33.2

Q ss_pred             hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHhcCCCCCCHhhH
Q 023133           84 CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSR-----------QIEKALLIFDHIKGLKCKPDLITY  141 (287)
Q Consensus        84 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~  141 (287)
                      +++|+..|++.++.. |.+..+|..+..+|.+.|           ++++|.+.|++..+.  .|+...|
T Consensus        62 ~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y  127 (158)
T 1zu2_A           62 IQEAITKFEEALLID-PKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHY  127 (158)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHH
Confidence            446677777766665 445566666766666653           566666666666554  3554444

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.03  E-value=2.2e-05  Score=53.84  Aligned_cols=98  Identities=13%  Similarity=0.006  Sum_probs=65.1

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC----------HHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ----------IEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      +.+.+++|.+.++...+.. |.+...|..+..++...++          +++|+..|++..+.. +.....|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            3455677777777777765 5667777777777776665          458888888877663 335567777888877


Q ss_pred             hcC-----------CHHHHHHHHHHHHHcCCCCChhHHHHHHH
Q 023133          150 RVG-----------RVNDMLNEFASMKEAGVVPDFISYNTLLN  181 (287)
Q Consensus       150 ~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  181 (287)
                      ..|           ++++|+..|++..+.  .|+...|...+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~  132 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            664           677777777777664  355544444443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.99  E-value=2.7e-05  Score=49.33  Aligned_cols=64  Identities=17%  Similarity=0.181  Sum_probs=48.2

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +...+..+...+...|++++|...|++..+.. +.+...|..+..+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45667777778888888888888888877653 33456777788888888888888888887764

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.86  E-value=0.00014  Score=45.95  Aligned_cols=59  Identities=14%  Similarity=0.236  Sum_probs=24.6

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHI  129 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  129 (287)
                      .+..+..++...|++++|+..|+++++.. +.+..+|..+..+|...|++++|.+.|++.
T Consensus         9 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a   67 (100)
T 3ma5_A            9 TRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQG   67 (100)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33334444444444444444444444433 223334444444444444444444444433

>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=97.85  E-value=0.00047  Score=54.15  Aligned_cols=71  Identities=15%  Similarity=-0.011  Sum_probs=53.1

Q ss_pred             cCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          205 KPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +.+..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.|+++....|..+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            4566677777666666788888888888888764  6766676677777788888888888888888777554

>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=97.83  E-value=0.0011  Score=52.07  Aligned_cols=71  Identities=14%  Similarity=0.025  Sum_probs=38.5

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhH
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVY  246 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  246 (287)
                      +..+|..+...+...|++++|...++++...+  |+...|..+...+.-.|++++|.+.+++....  .|...+|
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            44455554444444566666666666665553  45555555555555666666666666655543  3444443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.82  E-value=0.00025  Score=48.08  Aligned_cols=90  Identities=10%  Similarity=0.017  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCc--chHhHHHHHHHHHhcCChHHHHH
Q 023133          190 DLCLIYFREMGESGIKPDLLTYTALIDSFGRTG---NIEESLRLFNDMKQQQIRP--SIYVYRSLIDNLKKMGKVDLAMT  264 (287)
Q Consensus       190 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~  264 (287)
                      ..+.+-|.+..+.| .++..+...+..++.+++   +.++++.+|+...+.. .|  +...+-.+.-++.+.|++++|.+
T Consensus        15 ~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           15 LKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            34444555444444 356666666666666666   4556666666666543 23  23444455556666777777777


Q ss_pred             HHHHHhhcCCCCCChhh
Q 023133          265 IFEEMNSSLSDLAGPKD  281 (287)
Q Consensus       265 ~~~~~~~~~~~~~~~~~  281 (287)
                      +++++.+..|++....+
T Consensus        93 y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           93 YVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             HHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHhcCCCCHHHHH
Confidence            77777666666654433

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.82  E-value=3.9e-05  Score=48.26  Aligned_cols=89  Identities=9%  Similarity=0.105  Sum_probs=54.5

Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhc
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLL-TYTALIDSFGRTGNIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKM  256 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~  256 (287)
                      ....+.+.|++++|...+++..+.. +.+.. .+..+..+|...|++++|.+.|++..+..  |+ ...+..        
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~--------   74 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN--PDSPALQAR--------   74 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTHHHHH--------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHH--------
Confidence            3445566777777777777776653 33455 66777777777777777777777777642  32 222211        


Q ss_pred             CChHHHHHHHHHHhhcCCCCCC
Q 023133          257 GKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       257 g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      +.+.++...|++.....|+.+.
T Consensus        75 ~~~~~a~~~~~~~~~~~p~~~~   96 (99)
T 2kc7_A           75 KMVMDILNFYNKDMYNQLEHHH   96 (99)
T ss_dssp             HHHHHHHHHHCCTTHHHHCCSS
T ss_pred             HHHHHHHHHHHHHhccCccccc
Confidence            4566666666666555554443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.67  E-value=8.8e-05  Score=60.26  Aligned_cols=87  Identities=8%  Similarity=-0.064  Sum_probs=67.8

Q ss_pred             hcCchHHHHHHHHHHhh---CCCc---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCcc-hHhHHHHH
Q 023133          185 KIRRLDLCLIYFREMGE---SGIK---PD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ-----Q-IRPS-IYVYRSLI  250 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~---~~~~---~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~~~~~li  250 (287)
                      ..|++++|..++++.++   .-+.   |+ ..+++.|..+|...|++++|..++++..+-     | -.|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            45788999999988764   1122   22 357899999999999999999999988742     2 2344 45789999


Q ss_pred             HHHHhcCChHHHHHHHHHHhh
Q 023133          251 DNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       251 ~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ..|...|++++|..+++++..
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999854

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.65  E-value=0.00018  Score=58.53  Aligned_cols=93  Identities=14%  Similarity=0.049  Sum_probs=71.1

Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCC---CcCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CCcc-hH
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESG---IKPD----LLTYTALIDSFGRTGNIEESLRLFNDMKQQ-----Q-IRPS-IY  244 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~-~~~~-~~  244 (287)
                      .+..+.+.|++++|..++++..+..   +.|+    ..+++.|..+|...|++++|+.++++.++-     | -.|+ ..
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            3455667889999999999887531   1222    457888999999999999999999988642     2 2333 45


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          245 VYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       245 ~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      +++.|...|...|++++|..+++++.+
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            688899999999999999999998844

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.59  E-value=0.00033  Score=56.88  Aligned_cols=85  Identities=6%  Similarity=-0.087  Sum_probs=55.3

Q ss_pred             CChhHHHHHHHHHHHhc---CCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHhc-----C--CCCcHHHHHHHHHH
Q 023133           47 NDIDLSFQILKDLLVSS---RTLS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQI-----A--SPESIIVVNRIIFA  112 (287)
Q Consensus        47 ~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~  112 (287)
                      |++++|+.++++.++..   +.|+    ..+++.+..+|...|++++|+.++++.++.     |  .+....+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            45677777766665421   2222    346677777777777777777777766532     2  22345677888888


Q ss_pred             HHhcCCHHHHHHHHHHHhc
Q 023133          113 FAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~  131 (287)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888888888888877643

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.59  E-value=0.0014  Score=40.59  Aligned_cols=51  Identities=10%  Similarity=-0.037  Sum_probs=23.4

Q ss_pred             HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCC
Q 023133          224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSD  275 (287)
Q Consensus       224 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  275 (287)
                      .++|..++++..+.. +-+......+...+.+.|++++|...|+++....|.
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            344555555544431 223334444444444555555555555555444444

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.58  E-value=0.00053  Score=55.73  Aligned_cols=86  Identities=8%  Similarity=-0.038  Sum_probs=50.8

Q ss_pred             hcCChhHHHHHHHHHHHhc---CCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHhc-----C--CCCcHHHHHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSS---RTLS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQI-----A--SPESIIVVNRII  110 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~  110 (287)
                      +.|++++|+.++++.++..   ..|+    ..+++.+..+|...|++++|+.+++++++.     |  .+....+++.|.
T Consensus       299 ~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa  378 (429)
T 3qwp_A          299 AHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVG  378 (429)
T ss_dssp             HTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHH
Confidence            4456666666666665321   1121    235566666666677777777666665432     1  122345677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHh
Q 023133          111 FAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~  130 (287)
                      ..|...|++++|+.++++..
T Consensus       379 ~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          379 KLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHHH
Confidence            77777777777777776654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.56  E-value=0.00046  Score=43.19  Aligned_cols=66  Identities=17%  Similarity=0.239  Sum_probs=56.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCcchH-hHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          214 LIDSFGRTGNIEESLRLFNDMKQQQIRPSIY-VYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       214 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      ....+...|++++|...+++..+.. +.+.. .+..+..++...|++++|.+.|+++....|+.+...
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            4567788999999999999998763 33556 888899999999999999999999999999876543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.54  E-value=0.00093  Score=42.45  Aligned_cols=65  Identities=8%  Similarity=-0.029  Sum_probs=34.2

Q ss_pred             ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC------CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          172 DFISYNTLLNNLRKIRRLDLCLIYFREMGESG------IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       172 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +...+..+...+.+.++++.|...|+...+..      -.+....+..|..++.+.|+++.|...++++.+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            33444455555566666666666665554320      112334455555556666666666666665554

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.52  E-value=0.0065  Score=53.57  Aligned_cols=154  Identities=11%  Similarity=0.122  Sum_probs=89.4

Q ss_pred             HHhhcCChhHHHH-HHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHH
Q 023133           42 ASAETNDIDLSFQ-ILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIE  120 (287)
Q Consensus        42 ~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  120 (287)
                      .....+++++|.+ ++..      .|+......++..+.+.|.++.|.++.+.       +.     .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~------i~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN------VEGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG------CCCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc------CCchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHH
Confidence            3445677777765 4311      11122235566667777777777765421       11     1123355678888


Q ss_pred             HHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          121 KALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       121 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      +|.++.+.+      .+...|..+...+.+.++++.|.+.|..+.+         |..+...+...|+.+...++.+...
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            888876543      4567888888888888888888888887653         2344444445666666555555544


Q ss_pred             hCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          201 ESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       201 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      ..|      -++....+|.+.|++++|.+++.++
T Consensus       735 ~~~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          735 TTG------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HcC------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            443      1233333455556666666665554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.41  E-value=0.0044  Score=38.36  Aligned_cols=66  Identities=11%  Similarity=0.125  Sum_probs=40.9

Q ss_pred             CCHHHHHHHHHHHhccCC---hHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           66 LSSDCYTNFARAFIMTDD---CTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        66 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .+...+..+..++...++   .++|..++++.++.. +.++.....+...+.+.|++++|+..|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555555543332   566777777776665 455666666666677777777777777776665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=97.34  E-value=0.0022  Score=41.85  Aligned_cols=92  Identities=11%  Similarity=0.010  Sum_probs=53.0

Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCc--chHhHHHHHHHHHhcCChHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEE---SLRLFNDMKQQQIRP--SIYVYRSLIDNLKKMGKVDLA  262 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a  262 (287)
                      ....+.+-|.+....| .|+..+-..+..++.++.+...   ++.+++.+.+.+ .|  .....-.+.-++.+.|++++|
T Consensus        16 ~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3344455555444433 3555555556666666665444   666666666543 22  233444455566777777777


Q ss_pred             HHHHHHHhhcCCCCCChhh
Q 023133          263 MTIFEEMNSSLSDLAGPKD  281 (287)
Q Consensus       263 ~~~~~~~~~~~~~~~~~~~  281 (287)
                      .++++.+++..|++.....
T Consensus        94 ~~~~~~lL~~eP~n~QA~~  112 (126)
T 1nzn_A           94 LKYVRGLLQTEPQNNQAKE  112 (126)
T ss_dssp             HHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHH
Confidence            7777777777776655443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.28  E-value=0.023  Score=50.06  Aligned_cols=128  Identities=13%  Similarity=0.122  Sum_probs=84.5

Q ss_pred             HHhccCChHHHHH-HHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH
Q 023133           77 AFIMTDDCTQLLI-FIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN  155 (287)
Q Consensus        77 ~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  155 (287)
                      .....+++++|.+ ++..     ++ +......++..+.+.|.+++|.++.+.       |.     .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----VE-GKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----CC-CHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----CC-chHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHH
Confidence            3345678888766 4421     12 122337788888899999998876632       11     1134456789999


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +|.++.+.+      .+...|..+...+.+.++++.|.++|.++..         |..+...+...|+.+...++-+...
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~  734 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE  734 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH
Confidence            999886543      3678999999999999999999999998763         2233444444555555555544444


Q ss_pred             hC
Q 023133          236 QQ  237 (287)
Q Consensus       236 ~~  237 (287)
                      ..
T Consensus       735 ~~  736 (814)
T 3mkq_A          735 TT  736 (814)
T ss_dssp             HT
T ss_pred             Hc
Confidence            43

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.10  E-value=0.007  Score=41.01  Aligned_cols=83  Identities=13%  Similarity=0.101  Sum_probs=43.3

Q ss_pred             hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC---ChhHHHHHHHHHHHhcCCC--CHHHHHHHHHHHhccCChHHHHH
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN---DIDLSFQILKDLLVSSRTL--SSDCYTNFARAFIMTDDCTQLLI   89 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~   89 (287)
                      ...+.+-|.+....+.....+...+..++++.+   ++++++.++++..+.. .|  ....+-.+..++.+.++++.|.+
T Consensus        14 l~~~~~~y~~e~~~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~   92 (152)
T 1pc2_A           14 LLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALK   92 (152)
T ss_dssp             HHHHHHHHHHHHHTTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHH
T ss_pred             HHHHHHHHHHHHccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHH
Confidence            344445555554444433355555555555555   4446666666665543 12  23333445555566666666666


Q ss_pred             HHHHHHhcC
Q 023133           90 FIEEVVQIA   98 (287)
Q Consensus        90 ~~~~~~~~~   98 (287)
                      .++.+++..
T Consensus        93 y~~~lL~ie  101 (152)
T 1pc2_A           93 YVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHhcC
Confidence            666665553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.09  E-value=0.0051  Score=38.93  Aligned_cols=63  Identities=13%  Similarity=0.267  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHhcC------CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           69 DCYTNFARAFIMTDDCTQLLIFIEEVVQIA------SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        69 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      ..+..+...+.+.+++..|..+++...+..      -.+...++..+..+|.+.|+++.|...++++.+
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            334445555555555555555555544321      112344455555555555555555555555544

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.94  E-value=0.079  Score=40.15  Aligned_cols=85  Identities=11%  Similarity=0.047  Sum_probs=45.7

Q ss_pred             HHHHHHHHHHHhcCCCCCC---HhhHHHHHHHHHhc-----CCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhc-Cch
Q 023133          119 IEKALLIFDHIKGLKCKPD---LITYNIVLDILGRV-----GRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKI-RRL  189 (287)
Q Consensus       119 ~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~  189 (287)
                      ...|...+++..+.  .|+   ...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            34555555555544  233   33555566556553     66666666666665543321244555555555553 666


Q ss_pred             HHHHHHHHHHhhCCCc
Q 023133          190 DLCLIYFREMGESGIK  205 (287)
Q Consensus       190 ~~a~~~~~~~~~~~~~  205 (287)
                      +++.+.+++.......
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            6666666666655444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.91  E-value=0.054  Score=37.71  Aligned_cols=129  Identities=12%  Similarity=0.052  Sum_probs=95.0

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchH
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  190 (287)
                      ....+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|....+         +..+.-.|.-.|+.+
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 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            4567889999999998765      4788999999999999999999999988664         345555666678888


Q ss_pred             HHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHH
Q 023133          191 LCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       191 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +...+-+.....|      -++....++...|+++++.++|.+.-+   .|...      ......|..+.|.++.+++
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            8777766666554      245556667778999999999865432   22211      1122367788899998877

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.77  E-value=0.054  Score=35.70  Aligned_cols=140  Identities=13%  Similarity=0.066  Sum_probs=90.4

Q ss_pred             hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 023133           79 IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDML  158 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  158 (287)
                      .-.|..++..++..+.....   +..-+|-+|--....-+-+-..++++.+-+   ..|...          .|+.....
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFDis~----------C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLDK----------CQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGGG----------CSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhh---hcCcHh----------hhcHHHHH
Confidence            34577777777777776643   344455555444455555666666666544   234322          33333333


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..+-.+-     .+...+...+......|+-++-.+++..+... .+|++...-.+..+|.+.|+..+|.+++.+.-+.|
T Consensus        82 ~C~~~~n-----~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           82 ECGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhc-----chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            3332221     24456677778888889999988888886543 37788888888999999999999999999988887


Q ss_pred             CC
Q 023133          239 IR  240 (287)
Q Consensus       239 ~~  240 (287)
                      ++
T Consensus       156 ~k  157 (172)
T 1wy6_A          156 EK  157 (172)
T ss_dssp             CH
T ss_pred             hH
Confidence            54

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.76  E-value=0.02  Score=43.34  Aligned_cols=63  Identities=6%  Similarity=-0.033  Sum_probs=29.1

Q ss_pred             HHHHHHHHHhc-----cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc-CCHHHHHHHHHHHhcC
Q 023133           70 CYTNFARAFIM-----TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS-RQIEKALLIFDHIKGL  132 (287)
Q Consensus        70 ~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~  132 (287)
                      .|..+...|..     .|+.++|.+.|++.++.+..-+..++....+.++.. |+.+++.+.+++....
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a  269 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAI  269 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcC
Confidence            34444444444     245555555555555544212244444444444442 4555555555555444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.70  E-value=0.062  Score=35.43  Aligned_cols=140  Identities=15%  Similarity=0.118  Sum_probs=70.2

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      +.-.|.+++-.++..+........  -||.+|--....-+-+-..++++..   |-..|..          ..++.....
T Consensus        17 ~ildG~v~qGveii~k~~~ssni~--E~NW~ICNiiD~a~C~y~v~vLd~I---GkiFDis----------~C~NlKrVi   81 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSSTKS--EYNWFICNLLESIDCRYMFQVLDKI---GSYFDLD----------KCQNLKSVV   81 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCHH--HHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCGG----------GCSCTHHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCCCCcc--ccceeeeecchhhchhHHHHHHHHH---hhhcCcH----------hhhcHHHHH
Confidence            455788999999998887665433  4555555555554544444444443   3222221          112222222


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133           89 IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      .-+-.+     ..+.......++.....|.-++-.+++..+.... +|+....-.+..+|.+.|+..+|.+++.+.-+.|
T Consensus        82 ~C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG  155 (172)
T 1wy6_A           82 ECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  155 (172)
T ss_dssp             HHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhh
Confidence            222111     1222334444555555555555555555542221 4455555555555556666666665555555555


Q ss_pred             C
Q 023133          169 V  169 (287)
Q Consensus       169 ~  169 (287)
                      +
T Consensus       156 ~  156 (172)
T 1wy6_A          156 E  156 (172)
T ss_dssp             C
T ss_pred             h
Confidence            4

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.68  E-value=0.085  Score=36.71  Aligned_cols=130  Identities=12%  Similarity=0.080  Sum_probs=92.8

Q ss_pred             HHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHH
Q 023133           76 RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVN  155 (287)
Q Consensus        76 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  155 (287)
                      ......|+++.|.++.+.+      .+...|..|.+...+.|+++-|++.|.+...         +..+.-.|.-.|+.+
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 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            4566789999999987765      5688999999999999999999999998763         345556677788888


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMK  235 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  235 (287)
                      +..++-+.....|      -++.....+.-.|+++++.++|.+.-.   -|....      .....|..+.|.++.+.+-
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r---~~eA~~------~A~t~g~~~~a~~~~~~~~  142 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS---LPLAYA------VAKANGDEAAASAFLEQAE  142 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC---HHHHHH------HHHHTTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC---hHHHHH------HHHHcCcHHHHHHHHHHhC
Confidence            7776665555544      245556666678999999999865432   221111      1223566777888877653

>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=96.34  E-value=0.095  Score=34.39  Aligned_cols=78  Identities=6%  Similarity=0.023  Sum_probs=48.9

Q ss_pred             cCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChhh
Q 023133          205 KPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPKD  281 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  281 (287)
                      .|+..+--.+..++.++.+   ..+++.+++++.+.+..-....+-.+.-++.+.|++++|.++.+.+.+..|++.....
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            5666665556666666554   3456777777765541123445555666777777777777777777777777665444


Q ss_pred             H
Q 023133          282 F  282 (287)
Q Consensus       282 ~  282 (287)
                      .
T Consensus       117 L  117 (134)
T 3o48_A          117 L  117 (134)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.30  E-value=0.09  Score=35.35  Aligned_cols=19  Identities=16%  Similarity=0.045  Sum_probs=8.1

Q ss_pred             HhcCCHHHHHHHHHHHHHc
Q 023133          149 GRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~~  167 (287)
                      .+.|+...|.+++......
T Consensus       105 iRqgnl~kARkILg~AiG~  123 (161)
T 4h7y_A          105 LSQGNVKKSKQLLQKAVER  123 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHT
T ss_pred             HHcccHHHHHHHHHHHhcc
Confidence            3444444444444444443

>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=96.29  E-value=0.11  Score=34.96  Aligned_cols=54  Identities=17%  Similarity=0.143  Sum_probs=33.6

Q ss_pred             CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc
Q 023133          187 RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP  241 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  241 (287)
                      ++.++|.++|+.+.+.+-.. ...|....+--.+.|++..|.+++.+.+..+..|
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence            66777777777775443233 4455555555567777777777777777655433

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.28  E-value=0.44  Score=42.47  Aligned_cols=257  Identities=8%  Similarity=-0.025  Sum_probs=124.9

Q ss_pred             HHHhcCChhHHHHHHHHHhhcC-CCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcC-------CCCHHHHHHHHHH
Q 023133            8 KLCKAGNVSAAVRLLQSLRDKN-IFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSR-------TLSSDCYTNFARA   77 (287)
Q Consensus         8 ~~~~~g~~~~a~~~~~~~~~~~-~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~l~~~   77 (287)
                      +....|+.++++.+++.....+ ...+  ..=..+.-+.+..|..+++..++...+...-       .+....-..+.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            3455677777777777655422 1111  2222333344555555567777766654321       0111111222222


Q ss_pred             --HhccCChHHHHHHHHHHHhcCCCCcHHHHH--HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           78 --FIMTDDCTQLLIFIEEVVQIASPESIIVVN--RIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        78 --~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                        +.-.++ +++...+..++... ........  ++...+.-.|+-+....++..+.+.. .-+..-...+.-++...|+
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd-~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYND-SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTC-CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcC-CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCC
Confidence              222333 34445555544422 11111112  23333445566666666666655421 1111122223333446677


Q ss_pred             HHHHHHHHHHHHHcCCCCChhHH--HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 023133          154 VNDMLNEFASMKEAGVVPDFISY--NTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLF  231 (287)
Q Consensus       154 ~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  231 (287)
                      .+.+..+++.+.... .|....-  ..+.-+|+..|+.....+++..+.+.. ..++.....+.-++...|+.+.+.+++
T Consensus       540 ~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv  617 (963)
T 4ady_A          540 QELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIV  617 (963)
T ss_dssp             GGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHT
T ss_pred             hHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHH
Confidence            777777777776531 2222111  123445667777766666777776542 223333444444455566666666666


Q ss_pred             HHHHhCCCCcchHhHHHHHHHHHhcCCh-HHHHHHHHHHh
Q 023133          232 NDMKQQQIRPSIYVYRSLIDNLKKMGKV-DLAMTIFEEMN  270 (287)
Q Consensus       232 ~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~~~  270 (287)
                      +.+.+.+ .|.+..-..+.-+....|.. .++.+.+..+.
T Consensus       618 ~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          618 QLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             TTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            6555543 45555555555555555543 46666666664

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.24  E-value=0.071  Score=46.33  Aligned_cols=125  Identities=14%  Similarity=0.082  Sum_probs=82.3

Q ss_pred             HHHHHHhcCC-hhHHHHHHHHHhhcCCCCch-hHHHHHHHHhhcC-ChhHHHHHHHHHHHh------cCCCC-H------
Q 023133            5 YIEKLCKAGN-VSAAVRLLQSLRDKNIFLPN-AYNCVLVASAETN-DIDLSFQILKDLLVS------SRTLS-S------   68 (287)
Q Consensus         5 li~~~~~~g~-~~~a~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~~~-~------   68 (287)
                      |+..+...|+ .+.|..+|+++...++.... ....++..+...+ +--+|.+++.+.++.      ..++. .      
T Consensus       254 Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~~~  333 (754)
T 4gns_B          254 LKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSARLM  333 (754)
T ss_dssp             HHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHHHH
T ss_pred             HHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccccc
Confidence            4445555666 58899999999888754432 2223333333333 233455666555432      11211 1      


Q ss_pred             ----HHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133           69 ----DCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus        69 ----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                          ...+.-..-|...|+++.|+++-++..... |.+=.+|..|..+|.+.|+++.|+-.+..+.
T Consensus       334 ~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          334 NCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             CcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                122222344667899999999999998875 5677899999999999999999999998874

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.21  E-value=0.05  Score=35.47  Aligned_cols=67  Identities=18%  Similarity=0.152  Sum_probs=30.1

Q ss_pred             CCHHHHHHHHHHHhccCChHH---HHHHHHHHHhcCCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           66 LSSDCYTNFARAFIMTDDCTQ---LLIFIEEVVQIASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        66 ~~~~~~~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      |+..+-..+.-++.+..+...   ++.+++.+.+.+.+ ......-.|.-++.+.|++++|.+.++.+.+.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            444444444444444443333   45555555444311 12222333444555555555555555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.13  Score=44.76  Aligned_cols=128  Identities=13%  Similarity=0.059  Sum_probs=82.1

Q ss_pred             HHHHHHHhhcCC-hhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHhc------CCC-Cc-----
Q 023133           37 NCVLVASAETND-IDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD-DCTQLLIFIEEVVQI------ASP-ES-----  102 (287)
Q Consensus        37 ~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~------~~~-~~-----  102 (287)
                      ..++..+...++ .+.|..+++++.......+......++..+...+ +--+|.+++.+.++.      ..+ .+     
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            344455555566 5889999999987642222222233344433333 233455555554421      111 11     


Q ss_pred             -----HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          103 -----IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       103 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                           ....+.-.+.+...|+++.|+++-++..... +.+-.+|..|..+|...|+++.|+-.++.+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                 1234444566778999999999999987762 3356799999999999999999999998873

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=95.82  E-value=0.23  Score=33.08  Aligned_cols=75  Identities=7%  Similarity=0.022  Sum_probs=36.2

Q ss_pred             cCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCCh
Q 023133          205 KPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      .|+..+--.+..++.++.+   ..+++.+++.+.+.+..-.....-.+.-++.+.|++++|.++.+.+++..|++...
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA  113 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  113 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHH
Confidence            3444444444445554443   23455555555543211123333344445556666666666666666655555443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.69  E-value=4.1e-05  Score=61.72  Aligned_cols=242  Identities=11%  Similarity=0.050  Sum_probs=142.9

Q ss_pred             ChHHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133            1 MCNGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus         1 ~y~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      ||+.|..+....|++.+|++-|=+  ..++   ..|..++.+..+.|.+++-+..+.-.++..-.|  ..=+.|+-+|++
T Consensus        56 VWs~LgkAqL~~~~v~eAIdsyIk--A~Dp---s~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk  128 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDSYIK--ADDP---SSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAK  128 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTSSCC--CSCC---CSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHT
T ss_pred             HHHHHHHHHHccCchHHHHHHHHh--CCCh---HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHh
Confidence            566777777777777777665522  2222   267777788888888887777776555443233  333457777777


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC--------------------CCCCHhh
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK--------------------CKPDLIT  140 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~~~  140 (287)
                      .++..+.++++.       .|+..-...+.+-|...|.++.|.-+|..+....                    -..+..|
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            777664433321       2444444556666666676666666665443211                    0235567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          141 YNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       141 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      |..+-.+|...+.+.-|.-.--.+.-.   |  .-...++..|...|.+++-+.+++.-.... +...-.|+-|.-.|++
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIvh---a--deL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVVH---A--DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHCC---S--SCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhccc---H--HHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence            777777777777766555443333321   1  123346667788888888888888776432 5677788888888887


Q ss_pred             cCCHHHHHHHHHHHHhC-CCCc------chHhHHHHHHHHHhcCChHHHH
Q 023133          221 TGNIEESLRLFNDMKQQ-QIRP------SIYVYRSLIDNLKKMGKVDLAM  263 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~-~~~~------~~~~~~~li~~~~~~g~~~~a~  263 (287)
                      - ++++..+.++..-.+ +++.      ....|.-++-.|.+-.+++.|.
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            5 445544444433221 2211      2334666666666666666543

>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=95.30  E-value=0.42  Score=38.19  Aligned_cols=72  Identities=13%  Similarity=0.092  Sum_probs=49.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHH-----hcCCCCcHHHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVV-----QIASPESIIVVN  107 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  107 (287)
                      +...++..+...|++++++..+..+... .+.+...+..++.++.+.|+..+|++.|+...     +.|+.|+..+-.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4556666777778888887777777654 34566777777888888888888887777654     347777665443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.07  E-value=1.6  Score=40.34  Aligned_cols=190  Identities=13%  Similarity=0.078  Sum_probs=113.5

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCC-----------------
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKP-----------------  136 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-----------------  136 (287)
                      ++..+...+..+.+.++...     .+.+...--.+..+|...|++++|.+.|.+... |+..                 
T Consensus       818 l~~~l~~~~~~~~~~~l~~~-----~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGW-----LNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHH-----SCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHhhhHHHHHHHhhh-----ccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccc
Confidence            44445555555555443322     234455556677889999999999999977532 1100                 


Q ss_pred             ------CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh----hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcC
Q 023133          137 ------DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDF----ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKP  206 (287)
Q Consensus       137 ------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  206 (287)
                            -..-|..++..+.+.+.++.+.++-....+....-+.    ..|..++..+...|++++|...+-.+.....  
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--
Confidence                  0122567788888889999888877766554222121    2578899999999999999999988876533  


Q ss_pred             CHHHHHHHHHHHHhcCCH------------HHHHHHHHHHHhCC--CCcchHhHHHHHHHHHhcCChHHH-HHHHHHHhh
Q 023133          207 DLLTYTALIDSFGRTGNI------------EESLRLFNDMKQQQ--IRPSIYVYRSLIDNLKKMGKVDLA-MTIFEEMNS  271 (287)
Q Consensus       207 ~~~~~~~l~~~~~~~g~~------------~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  271 (287)
                      -......|+...+..|..            ++..+++....+..  ....+.-|..|-.-+...|++..| .-+|+.+.+
T Consensus       970 r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~~R 1049 (1139)
T 4fhn_B          970 KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKLSR 1049 (1139)
T ss_dssp             CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHHHH
Confidence            345566666666655544            44444444322211  111112344444445667777654 445555533

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.04  E-value=0.56  Score=38.07  Aligned_cols=97  Identities=14%  Similarity=-0.006  Sum_probs=60.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC--CHHHHHHHHHHHhccCChHHHHHHHHHHHhc---CCCCcHHH--H
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTL--SSDCYTNFARAFIMTDDCTQLLIFIEEVVQI---ASPESIIV--V  106 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~--~  106 (287)
                      .++..+...|.+.|+++.|.+.+.++......+  -...+-.+++.+...+++..+...+.++...   +..++...  .
T Consensus       132 ~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk  211 (429)
T 4b4t_R          132 QAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYK  211 (429)
T ss_dssp             SCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHH
Confidence            577778888888888888888888877653333  2456666777778888888888877776432   22222211  1


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHh
Q 023133          107 NRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus       107 ~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      ..-+..+...+++..|...|-+..
T Consensus       212 ~~~gl~~l~~r~f~~Aa~~f~e~~  235 (429)
T 4b4t_R          212 TYYGIHCLAVRNFKEAAKLLVDSL  235 (429)
T ss_dssp             HHHHHGGGGTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhChHHHHHHHHHHHh
Confidence            111122345677777777776553

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.01  E-value=1.9  Score=38.66  Aligned_cols=225  Identities=10%  Similarity=0.001  Sum_probs=128.6

Q ss_pred             HHHHhcCChhHHHHHHHHHhhcCC-------CCc-hhHHHHHHHHhhcCC-hhHHHHHHHHHHHhcCCCCHHHHH--HHH
Q 023133            7 EKLCKAGNVSAAVRLLQSLRDKNI-------FLP-NAYNCVLVASAETND-IDLSFQILKDLLVSSRTLSSDCYT--NFA   75 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~~~~~-------~~~-~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~--~l~   75 (287)
                      -+....|..+++..++........       .+. ..-..+.-+.+-.|. -+++.+.+..++.... +......  .+.
T Consensus       419 LGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALG  497 (963)
T 4ady_A          419 LGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMG  497 (963)
T ss_dssp             HHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHH
T ss_pred             HHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHh
Confidence            345566666678877766554332       011 112223333333333 2456666666654321 1111122  233


Q ss_pred             HHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhh--HHHHHHHHHhcCC
Q 023133           76 RAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLIT--YNIVLDILGRVGR  153 (287)
Q Consensus        76 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~~~~  153 (287)
                      ..+.-.|+.+....++..+.+.. ..+..-...+.-++.-.|+.+.+..+++.+.... .|....  -.++..+|+..|+
T Consensus       498 li~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn  575 (963)
T 4ady_A          498 LCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGN  575 (963)
T ss_dssp             HHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCC
T ss_pred             hhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCC
Confidence            44556678777777777766532 2333333344444557788888888888887641 222222  1234567788999


Q ss_pred             HHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCH-HHHHHHHH
Q 023133          154 VNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNI-EESLRLFN  232 (287)
Q Consensus       154 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~  232 (287)
                      ......+++.+.+.. ..++.....+.-++...|+.+.+.+++..+.+.+ .|.+..-..+.-+....|.. .++..++.
T Consensus       576 ~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~  653 (963)
T 4ady_A          576 NSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLD  653 (963)
T ss_dssp             HHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHH
T ss_pred             HHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            888888999988753 2244444444445556777777788887766654 56655555555555555543 67888888


Q ss_pred             HHHh
Q 023133          233 DMKQ  236 (287)
Q Consensus       233 ~~~~  236 (287)
                      .+..
T Consensus       654 ~L~~  657 (963)
T 4ady_A          654 PLTK  657 (963)
T ss_dssp             HHHT
T ss_pred             HHcc
Confidence            8875

>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=94.99  E-value=0.15  Score=40.83  Aligned_cols=73  Identities=11%  Similarity=0.040  Sum_probs=57.0

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCcchHhHHHH
Q 023133          176 YNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ-----QQIRPSIYVYRSL  249 (287)
Q Consensus       176 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  249 (287)
                      ...++..+...|+++++...+..+.... +.+...+..+|.++.+.|+..+|++.|+.+.+     .|+.|+..+-...
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            4456677788899999998888887653 56777899999999999999999998888754     3888887764433

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.39  E-value=1.7  Score=35.42  Aligned_cols=190  Identities=9%  Similarity=0.081  Sum_probs=111.6

Q ss_pred             cCChhHHHHHHHHHHHh-----cCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHH----HHhc
Q 023133           46 TNDIDLSFQILKDLLVS-----SRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFA----FAKS  116 (287)
Q Consensus        46 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~  116 (287)
                      .|+++.|++.+-.+.+.     ...........++..|...++++...+.+.-+.+..... ......+++.    ....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888877666543     233345667778888999999998888777665432122 2222333332    2222


Q ss_pred             CCHHH--HHHHHHHHhcC--C-CCCC---HhhHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCCC---hhHHHHHHHHH
Q 023133          117 RQIEK--ALLIFDHIKGL--K-CKPD---LITYNIVLDILGRVGRVNDMLNEFASMKEA--GVVPD---FISYNTLLNNL  183 (287)
Q Consensus       117 ~~~~~--a~~~~~~~~~~--~-~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  183 (287)
                      ...+.  -..+.+.+...  | +-..   ......|...+...|++.+|..++..+...  |..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            32222  22222222111  1 1111   112355777888889999999999888543  22211   24566677888


Q ss_pred             HhcCchHHHHHHHHHHhh----CCCcCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          184 RKIRRLDLCLIYFREMGE----SGIKPDL--LTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       184 ~~~~~~~~a~~~~~~~~~----~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ...+++..|..++.++..    ....|+.  ..+...+..+...+++.+|.+.|.++.+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            888999999888887642    2222322  3456667777778888888877776653

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.15  E-value=0.91  Score=41.98  Aligned_cols=22  Identities=5%  Similarity=-0.008  Sum_probs=12.4

Q ss_pred             HHHHHHHhhcCChhHHHHHHHH
Q 023133           37 NCVLVASAETNDIDLSFQILKD   58 (287)
Q Consensus        37 ~~l~~~~~~~~~~~~a~~~~~~   58 (287)
                      ..+..++...|++++|.+.|++
T Consensus       846 yl~g~~~L~~ge~~~A~~~F~k  867 (1139)
T 4fhn_B          846 YLKALIYLKSKEAVKAVRCFKT  867 (1139)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHH
Confidence            3445555566666666666544

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=93.54  E-value=6.2e-05  Score=60.72  Aligned_cols=201  Identities=12%  Similarity=0.126  Sum_probs=141.2

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAF  113 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  113 (287)
                      ..|..|..+....+...+|++.|-+.      -|+..|..++.++.+.|.+++-..++...++..  .++.+=+.|+-+|
T Consensus        55 ~VWs~LgkAqL~~~~v~eAIdsyIkA------~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ay  126 (624)
T 3lvg_A           55 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL  126 (624)
T ss_dssp             CCSSSHHHHTTTSSSCTTTTTSSCCC------SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHH
T ss_pred             cHHHHHHHHHHccCchHHHHHHHHhC------CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHH
Confidence            68999999999999998887765321      256678889999999999999999998887664  3444557899999


Q ss_pred             HhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC--------------------CCCCh
Q 023133          114 AKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG--------------------VVPDF  173 (287)
Q Consensus       114 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------------------~~~~~  173 (287)
                      ++.++..+.++++.       .|+..-...+.+-|...|.++.|.-+|..+....                    -.-++
T Consensus       127 Ak~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~  199 (624)
T 3lvg_A          127 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANST  199 (624)
T ss_dssp             HTSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSS
T ss_pred             HhhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCCh
Confidence            99998765444332       4677667778888888888887777765543211                    12367


Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHH
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNL  253 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  253 (287)
                      .||..+-.+|...+.+.-|.-+--.++-.   ||  -...++..|...|.+++-+.+++..... -+...-+|+-|.-.|
T Consensus       200 ktWKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILY  273 (624)
T 3lvg_A          200 RTWKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILY  273 (624)
T ss_dssp             CSHHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHH
Confidence            89999999999999988877665555422   11  1223566688888888888888877632 133444555555444


Q ss_pred             Hh
Q 023133          254 KK  255 (287)
Q Consensus       254 ~~  255 (287)
                      ++
T Consensus       274 sK  275 (624)
T 3lvg_A          274 SK  275 (624)
T ss_dssp             HS
T ss_pred             Hh
Confidence            44

>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=93.51  E-value=0.79  Score=28.40  Aligned_cols=63  Identities=13%  Similarity=0.153  Sum_probs=44.7

Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      +.-+..+-++.+....+.|++....+.+.+|.+.+++..|.++|+-.+.+ ..+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            44466777777777777888888888888888888888888888877744 2233445666554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.46  E-value=0.72  Score=31.62  Aligned_cols=114  Identities=15%  Similarity=0.074  Sum_probs=66.3

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhc---CC--CCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhc-CCCCH-HHHHH
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDK---NI--FLP----NAYNCVLVASAETNDIDLSFQILKDLLVSS-RTLSS-DCYTN   73 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~---~~--~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-~~~~~   73 (287)
                      -+..+...|.++.|+-+.+.+...   +.  .++    .++..+..++...+++.+|...|++.++.. .-+.. .....
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~s~~~~  105 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTSKVRPS  105 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC---------
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCCCcccc
Confidence            356777888999998887764332   22  122    366777888899999999999998875432 11111 11111


Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      +.   .......          ......+..+---+..+|.+.+++++|+.+++.+..
T Consensus       106 ~~---~~ss~p~----------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          106 TG---NSASTPQ----------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             ------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             cc---ccCCCcc----------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            10   0000000          011233445555588888999999999999887754

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.10  E-value=1.4  Score=30.18  Aligned_cols=122  Identities=7%  Similarity=-0.078  Sum_probs=70.9

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhc-CCCCH-------HHHHHHHHHHhccCChHHHHHHHHHHHhcC--CCCcH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSS-RTLSS-------DCYTNFARAFIMTDDCTQLLIFIEEVVQIA--SPESI  103 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~  103 (287)
                      .++..-+..+...+.++.|+-+.+-+.... ..|+.       .++..+..++...+++..|...|++.++..  ++.+.
T Consensus        21 ~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~~k~l~k~~  100 (167)
T 3ffl_A           21 MNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQKKALSKTS  100 (167)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHhcCC
Confidence            456666777888888888887777755432 22331       245667788888899999999998875432  11111


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      .....+.    .......         .....++...---+..+|.+.+++++|+.+++.+....
T Consensus       101 s~~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~k~  152 (167)
T 3ffl_A          101 KVRPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGIPSRQ  152 (167)
T ss_dssp             -----------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCGGG
T ss_pred             Ccccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcCCchh
Confidence            1111110    0000000         01113345555558889999999999999998875443

>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=93.05  E-value=1.2  Score=29.23  Aligned_cols=68  Identities=13%  Similarity=0.065  Sum_probs=33.6

Q ss_pred             CCCHHHHHHHHHHHhccC---ChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           65 TLSSDCYTNFARAFIMTD---DCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        65 ~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      .|+..+--.+.-++.+..   +...++.+++.+.+.+.......+--|.-++.+.|++++|.+..+.+.+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            344444433444444443   23345555555555442122333444555566666666666666666554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.85  E-value=4.5  Score=32.99  Aligned_cols=262  Identities=11%  Similarity=0.030  Sum_probs=154.1

Q ss_pred             cCChhHHHHHHHHHhhc-----CCCCc-hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh----cc
Q 023133           12 AGNVSAAVRLLQSLRDK-----NIFLP-NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI----MT   81 (287)
Q Consensus        12 ~g~~~~a~~~~~~~~~~-----~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~   81 (287)
                      .|+++.|++.+-.+.+.     +.... .....++..|...++++...+.+.-+....... ......+++.+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788888887666542     22223 678889999999999999888777665432222 222333443332    23


Q ss_pred             CChHHH--HHHHHHHH--hcC-CCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC--CCCCC---HhhHHHHHHHH
Q 023133           82 DDCTQL--LIFIEEVV--QIA-SPE---SIIVVNRIIFAFAKSRQIEKALLIFDHIKGL--KCKPD---LITYNIVLDIL  148 (287)
Q Consensus        82 ~~~~~a--~~~~~~~~--~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~  148 (287)
                      ...+..  ....+.+.  ..| +-.   .......|...|...|++.+|..++..+...  |..+.   ...+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            332221  11111111  111 112   2234567889999999999999999998642  22111   23567778899


Q ss_pred             HhcCCHHHHHHHHHHHHH----cCCCCC--hhHHHHHHHHHHhcCchHHHHHHHHHHhhC-CCcCCHHHHHHHH----HH
Q 023133          149 GRVGRVNDMLNEFASMKE----AGVVPD--FISYNTLLNNLRKIRRLDLCLIYFREMGES-GIKPDLLTYTALI----DS  217 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~----~~  217 (287)
                      ...+++..|..++.....    ....|+  ...+...+..+...+++.+|.+.|.++.+. ....|...+..++    .+
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~  267 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYF  267 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHH
Confidence            999999999999988742    222222  234566777788889999999888877643 1122333332222    22


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhc--CChHHHHHHHHHHhhcCC
Q 023133          218 FGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKM--GKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       218 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~~~  274 (287)
                      ..-.+....-..++........-++...+..++.+|...  .+++.+.+.|.......+
T Consensus       268 ~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~~~  326 (445)
T 4b4t_P          268 LVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNEDD  326 (445)
T ss_dssp             HHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTTCC
T ss_pred             HHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcccc
Confidence            223333333333444333333334567788888888764  456777777765544443

>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=91.75  E-value=1.9  Score=28.39  Aligned_cols=63  Identities=13%  Similarity=0.153  Sum_probs=43.8

Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      +.-+..+-++.+...++.|++......+.+|.+.+|+..|.++|+-.+.+ ..+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            34456666666677777888888888888888888888888888877754 2333445666554

>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=91.63  E-value=5.9  Score=33.87  Aligned_cols=115  Identities=10%  Similarity=-0.076  Sum_probs=68.6

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHH----HHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISY----NTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      +.+.|...+....+.... +....    ..+.......+...++...+......  .++.......+....+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~~~-~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhccCC-CHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHH
Confidence            778888888887654322 32222    22232333344355666666665443  234333334444445679999999


Q ss_pred             HHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          229 RLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ..|+.|..... ....-.--+..++...|+.++|..+|+++.+
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            99988875321 1233344456677788999999999888754

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.54  E-value=4.7  Score=32.65  Aligned_cols=98  Identities=7%  Similarity=-0.116  Sum_probs=62.6

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcC--CCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhc---CCCCCCHhhH--H
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIA--SPESIIVVNRIIFAFAKSRQIEKALLIFDHIKG---LKCKPDLITY--N  142 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~--~  142 (287)
                      +...+...+.+.|+++.|.+.+.++...-  ...-...+-.++..+...+++..+...+.+...   .+..|+...-  .
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            55667778888888888888888877542  234456777788888888888888888877643   2222222210  1


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          143 IVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       143 ~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      .-...+...+++..|...|-+....
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~t  237 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLAT  237 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhcc
Confidence            1112234567788888877776443

>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=91.39  E-value=1.6  Score=27.03  Aligned_cols=62  Identities=11%  Similarity=0.206  Sum_probs=40.8

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|.++++-++..- .+....|..++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~l   86 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   86 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHH
Confidence            455666666777777777777777777777777777777777777776431 22233455554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.42  E-value=2.7  Score=27.95  Aligned_cols=47  Identities=9%  Similarity=-0.019  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC
Q 023133           86 QLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL  132 (287)
Q Consensus        86 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  132 (287)
                      +++.+++.+.+.+........-.|.-++.+.|++++|.+..+.+.+.
T Consensus        60 ~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           60 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             HHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            44445555444332222222333444455555555555555555443

>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=89.35  E-value=3.3  Score=27.27  Aligned_cols=62  Identities=11%  Similarity=0.206  Sum_probs=42.9

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      +.-+..+-++.+...++-|++......+++|-+.+++..|.++++-++.+- .+....|..++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            455666667777777777888888888888888888888888887776431 23334565555

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.12  E-value=2.7  Score=25.96  Aligned_cols=48  Identities=15%  Similarity=0.142  Sum_probs=19.6

Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      +...|++++|..+.+.+.    .||.+.|-+|-.  .+.|--+++...+..+..
T Consensus        49 LmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             HHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            344444444444443333    344444433322  234444444444434433

>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=88.81  E-value=2.9  Score=25.88  Aligned_cols=17  Identities=12%  Similarity=0.090  Sum_probs=7.4

Q ss_pred             HHhcCCHHHHHHHHHHH
Q 023133          113 FAKSRQIEKALLIFDHI  129 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~  129 (287)
                      +...|++++|..+.+.+
T Consensus        50 LmNrG~Yq~Al~l~~~~   66 (116)
T 2p58_C           50 LMNRGDYASALQQGNKL   66 (116)
T ss_dssp             HHHTTCHHHHHHHHTTS
T ss_pred             HHcchhHHHHHHhcCCC
Confidence            34444444444444433

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=88.41  E-value=7.5  Score=30.21  Aligned_cols=85  Identities=5%  Similarity=0.033  Sum_probs=53.4

Q ss_pred             HHhhcCChhHHHHH----HHHHHHhcCCCCHHHHHHHHHHHhccCChH-HHHHHHHHHH----hcC--CCCcHHHHHHHH
Q 023133           42 ASAETNDIDLSFQI----LKDLLVSSRTLSSDCYTNFARAFIMTDDCT-QLLIFIEEVV----QIA--SPESIIVVNRII  110 (287)
Q Consensus        42 ~~~~~~~~~~a~~~----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~  110 (287)
                      .+.+.|+...+-++    ++-+.+.+++++......++..+.....-+ .-..++++++    +.|  ..-++.....+.
T Consensus        64 ~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig  143 (336)
T 3lpz_A           64 TLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVG  143 (336)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHH
T ss_pred             HHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Confidence            34455555444433    355566778888888888887777655321 1222333332    223  235677888888


Q ss_pred             HHHHhcCCHHHHHHHH
Q 023133          111 FAFAKSRQIEKALLIF  126 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~  126 (287)
                      ..|.+.+++.+|+..|
T Consensus       144 ~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          144 TLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HHHHHTTCHHHHHHHH
T ss_pred             HHHHccCCHHHHHHHH
Confidence            9999999999988877

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.95  E-value=4.4  Score=30.29  Aligned_cols=51  Identities=14%  Similarity=0.130  Sum_probs=23.6

Q ss_pred             hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 023133           79 IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIK  130 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  130 (287)
                      .+.|+++++++....-++.. |.|...-..++..++-.|+|+.|.+-++...
T Consensus         8 l~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a   58 (273)
T 1zbp_A            8 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI   58 (273)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            34444444444444444443 3444444444444444555555544444443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=87.38  E-value=9.8  Score=30.40  Aligned_cols=57  Identities=12%  Similarity=0.050  Sum_probs=29.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-----HhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133          108 RIIFAFAKSRQIEKALLIFDHIKGLKCKPD-----LITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus       108 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      .++..|...|++.+|.+++.++.+.--..|     ...+-.-+..|...+++.++...+...
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            455666666666666666655543110111     123344445556666666666666554

>4b4t_S RPN3, 26S proteasome regulatory subunit RPN3; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.15  E-value=2  Score=35.52  Aligned_cols=60  Identities=12%  Similarity=0.100  Sum_probs=32.1

Q ss_pred             hHHHHHHHHhcCChhHHHHHHHHHhhcCC-CCc----hhHHHHHHHHhhcCChhHHHHHHHHHHH
Q 023133            2 CNGYIEKLCKAGNVSAAVRLLQSLRDKNI-FLP----NAYNCVLVASAETNDIDLSFQILKDLLV   61 (287)
Q Consensus         2 y~~li~~~~~~g~~~~a~~~~~~~~~~~~-~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~   61 (287)
                      +|.+++.|...+.+++|..+..+..-... .++    .-+..+.+.+.-.+++.+|.+.+.....
T Consensus       234 ~nllLRnYL~~~~y~qA~~lvsk~~fP~~~~sn~q~~rY~YY~GRI~a~q~~Y~eA~~~L~~A~r  298 (523)
T 4b4t_S          234 INLILRDFLNNGEVDSASDFISKLEYPHTDVSSSLEARYFFYLSKINAIQLDYSTANEYIIAAIR  298 (523)
T ss_dssp             HHHHHHHHHHSSCSTTHHHHHHHHCSCTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHccCcHHHHHHHHhcCcCCcccCCHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            45666666666666666666666532211 111    1222344555566666666666665543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.84  E-value=4.5  Score=24.99  Aligned_cols=50  Identities=6%  Similarity=-0.160  Sum_probs=22.9

Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK  133 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  133 (287)
                      +.+.|++++|..+.+..    ..||...|-+|.  -.+.|.-+++...+.++...|
T Consensus        49 LmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL~~la~sg   98 (115)
T 2uwj_G           49 LANQGRYQEALAFAHGN----PWPALEPWFALC--EWHLGLGAALDRRLAGLGGSS   98 (115)
T ss_dssp             HHHTTCHHHHHGGGTTC----CCGGGHHHHHHH--HHHTTCHHHHHHHHHHHHTCS
T ss_pred             HHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHHHHHHhCC
Confidence            34445555554443322    235555554443  234455555555554554443

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=85.28  E-value=4.7  Score=28.63  Aligned_cols=87  Identities=9%  Similarity=-0.002  Sum_probs=53.4

Q ss_pred             hHHHHHHHHHhhcCCCCc--hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChHHHHHHHH
Q 023133           16 SAAVRLLQSLRDKNIFLP--NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCTQLLIFIE   92 (287)
Q Consensus        16 ~~a~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~   92 (287)
                      +.+.+.|.....-.-.+.  ..|...+..+ ..+....+.++|..|...|+.-. ...|......+...|++.+|.++|+
T Consensus        61 Erc~~~F~~~~rYkND~RYLklWl~Ya~~~-~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~  139 (202)
T 3esl_A           61 ERCLIYIQDMETYRNDPRFLKIWIWYINLF-LSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLE  139 (202)
T ss_dssp             HHHHHHHTTCGGGTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhcccccccCCHHHHHHHHHHHHhh-cccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            444444544333222222  3444444443 12335678888888888776654 4456667777778888888888888


Q ss_pred             HHHhcCCCCcH
Q 023133           93 EVVQIASPESI  103 (287)
Q Consensus        93 ~~~~~~~~~~~  103 (287)
                      .-++.+-.|-.
T Consensus       140 ~GI~~~A~P~~  150 (202)
T 3esl_A          140 LGAENNCRPYN  150 (202)
T ss_dssp             HHHHTTCBSHH
T ss_pred             HHHHcCCccHH
Confidence            88877766643

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=85.24  E-value=4.9  Score=24.87  Aligned_cols=50  Identities=4%  Similarity=-0.124  Sum_probs=23.5

Q ss_pred             HhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLK  133 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  133 (287)
                      +.+.|++++|..+.+..    ..||...|-+|.  -.+.|.-+++...+.++...|
T Consensus        50 LmNrG~Yq~Al~l~~~~----c~pdlepw~ALc--e~rlGl~s~le~rL~~la~sg   99 (116)
T 2p58_C           50 LMNRGDYASALQQGNKL----AYPDLEPWLALC--EYRLGLGSALESRLNRLARSQ   99 (116)
T ss_dssp             HHHTTCHHHHHHHHTTS----CCGGGHHHHHHH--HHHHTCHHHHHHHHHHHTTCC
T ss_pred             HHcchhHHHHHHhcCCC----CCchHHHHHHHH--HHhcccHHHHHHHHHHHHhCC
Confidence            34455555555544322    235555554443  234455555555555554444

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=85.09  E-value=3  Score=28.14  Aligned_cols=55  Identities=11%  Similarity=0.018  Sum_probs=43.3

Q ss_pred             hHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHH
Q 023133           50 DLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESII  104 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  104 (287)
                      +++.++|..|...|+... ...|......+...|++.+|.++|+.-++.+-.|-..
T Consensus        82 ~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~A~P~~r  137 (152)
T 4a1g_A           82 SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQAEPREF  137 (152)
T ss_dssp             SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHH
T ss_pred             CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCccHHH
Confidence            448889999988887655 4456677788888999999999999988887667543

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.49  E-value=3.3  Score=30.76  Aligned_cols=242  Identities=10%  Similarity=-0.016  Sum_probs=110.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH---HHHHHHHHHhc
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSD---CYTNFARAFIM   80 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~   80 (287)
                      ..+...++.|+.+.+..+++.-...+...+..-...+...+..|+.+    +++.+.+.|..++..   -.+ .+...+.
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~   81 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGAT-PFLLAAI   81 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCC-HHHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCC-HHHHHHH
Confidence            45666778899887777765432222221111123444455667654    444555556554321   112 2233344


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcH---HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHh------------hHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESI---IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLI------------TYNIVL  145 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------------~~~~l~  145 (287)
                      .|+.+    +++.+.+.|..++.   .-++ .+...+..|+.+-+..+++    .|..++..            .-.+.+
T Consensus        82 ~~~~~----~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~~~~Ll~----~g~~~~~~~~~~~~~~~~~~~g~t~L  152 (285)
T 1wdy_A           82 AGSVK----LLKLFLSKGADVNECDFYGFT-AFMEAAVYGKVKALKFLYK----RGANVNLRRKTKEDQERLRKGGATAL  152 (285)
T ss_dssp             HTCHH----HHHHHHHTTCCTTCBCTTCCB-HHHHHHHTTCHHHHHHHHH----TTCCTTCCCCCCHHHHHTTCCCCCHH
T ss_pred             cCCHH----HHHHHHHcCCCCCccCcccCC-HHHHHHHhCCHHHHHHHHH----hCCCcccccccHHHHHhhccCCCcHH
Confidence            56654    44444455543321   1122 2334456677654444443    33333221            011233


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCC---hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHH--HHHHHHHHHh
Q 023133          146 DILGRVGRVNDMLNEFASMKEAGVVPD---FISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLT--YTALIDSFGR  220 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~--~~~l~~~~~~  220 (287)
                      ...+..|+.+-+..+++.   .|..++   ....+.+.. .+..++.....++.+.+.+.|..++...  -.+.+...+.
T Consensus       153 ~~A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~  228 (285)
T 1wdy_A          153 MDAAEKGHVEVLKILLDE---MGADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVE  228 (285)
T ss_dssp             HHHHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHH
Confidence            444566776544444332   143332   222333333 3345665555667777777766554321  1123444455


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcchHh--HHHHHHHHHhcCChHHHHHHH
Q 023133          221 TGNIEESLRLFNDMKQQQIRPSIYV--YRSLIDNLKKMGKVDLAMTIF  266 (287)
Q Consensus       221 ~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~  266 (287)
                      .|+.+-+..+++.   .|..++...  -.+-+....+.|+.+-+.-++
T Consensus       229 ~~~~~~v~~Ll~~---~g~~~~~~~~~g~t~l~~A~~~~~~~i~~~Ll  273 (285)
T 1wdy_A          229 KKHLGLVQRLLEQ---EHIEINDTDSDGKTALLLAVELKLKKIAELLC  273 (285)
T ss_dssp             TTCHHHHHHHHHS---SSCCTTCCCTTSCCHHHHHHHTTCHHHHHHHH
T ss_pred             cCCHHHHHHHHhc---cCCCccccCCCCCcHHHHHHHcCcHHHHHHHH
Confidence            6776554444431   343333211  112233344566654443333

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=84.42  E-value=4.1  Score=30.24  Aligned_cols=208  Identities=12%  Similarity=0.086  Sum_probs=98.2

Q ss_pred             HHHHHHhhcCChhHHHHHHHHHHHhcCCCCHH---HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHH--HHHHHHHH
Q 023133           38 CVLVASAETNDIDLSFQILKDLLVSSRTLSSD---CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESII--VVNRIIFA  112 (287)
Q Consensus        38 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~  112 (287)
                      ..+...++.|+.+.+..    +.+.|..++..   .-...+...+..|+.+    +++.+.+.|..++..  .-.+.+..
T Consensus         7 ~~L~~A~~~g~~~~v~~----Ll~~g~~~~~~~~~~g~t~L~~A~~~g~~~----~v~~Ll~~g~~~~~~~~~g~t~L~~   78 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQ----LLEGGANVNFQEEEGGWTPLHNAVQMSRED----IVELLLRHGADPVLRKKNGATPFLL   78 (285)
T ss_dssp             HHHHHHHHTTCHHHHHH----HHHTTCCTTCCCTTTCCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTCCCHHHH
T ss_pred             hHHHHHHHcCCHHHHHH----HHHcCCCcccccCCCCCcHHHHHHHcCCHH----HHHHHHHcCCCCcccCCCCCCHHHH
Confidence            34555667787765444    44455444321   1112344445567765    444455555443211  11123334


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCH---hhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChh-------------HH
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDL---ITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFI-------------SY  176 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------------~~  176 (287)
                      .+..|+.+-+..++    +.|..++.   ..++. +...+..|+.+    +++.+.+.|..++..             ..
T Consensus        79 A~~~~~~~~v~~Ll----~~g~~~~~~~~~g~t~-L~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~~~~~~~~~~g~  149 (285)
T 1wdy_A           79 AAIAGSVKLLKLFL----SKGADVNECDFYGFTA-FMEAAVYGKVK----ALKFLYKRGANVNLRRKTKEDQERLRKGGA  149 (285)
T ss_dssp             HHHHTCHHHHHHHH----HTTCCTTCBCTTCCBH-HHHHHHTTCHH----HHHHHHHTTCCTTCCCCCCHHHHHTTCCCC
T ss_pred             HHHcCCHHHHHHHH----HcCCCCCccCcccCCH-HHHHHHhCCHH----HHHHHHHhCCCcccccccHHHHHhhccCCC
Confidence            45567765444444    34433332   22223 33445667755    444455555544322             11


Q ss_pred             HHHHHHHHhcCchHHHHHHHHHHhhCCCcCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHh--HHHHHH
Q 023133          177 NTLLNNLRKIRRLDLCLIYFREMGESGIKPD---LLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYV--YRSLID  251 (287)
Q Consensus       177 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--~~~li~  251 (287)
                       ..+...+..|+.+-+..+++..   |..++   ..-.+.+.. ....++.....++++.+.+.|..++...  -.+.+.
T Consensus       150 -t~L~~A~~~~~~~~v~~Ll~~~---~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~  224 (285)
T 1wdy_A          150 -TALMDAAEKGHVEVLKILLDEM---GADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLI  224 (285)
T ss_dssp             -CHHHHHHHHTCHHHHHHHHHTS---CCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHH
T ss_pred             -cHHHHHHHcCCHHHHHHHHHhc---CCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHH
Confidence             2333445567766555554431   32222   222223333 3345555555667777777776655421  223344


Q ss_pred             HHHhcCChHHHHHHHH
Q 023133          252 NLKKMGKVDLAMTIFE  267 (287)
Q Consensus       252 ~~~~~g~~~~a~~~~~  267 (287)
                      ..+..|+.+-+..+++
T Consensus       225 ~A~~~~~~~~v~~Ll~  240 (285)
T 1wdy_A          225 LAVEKKHLGLVQRLLE  240 (285)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHh
Confidence            4556777766555554

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=83.25  E-value=3.7  Score=28.10  Aligned_cols=56  Identities=11%  Similarity=0.135  Sum_probs=44.6

Q ss_pred             hHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHH
Q 023133           50 DLSFQILKDLLVSSRTLS-SDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIV  105 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  105 (287)
                      +...++|..|...|+-.. ...|......+...|++..|.++|+.-++.+-.|....
T Consensus        77 ~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A~P~~~L  133 (164)
T 2wvi_A           77 NEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKAEPLERL  133 (164)
T ss_dssp             SCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBSHHHH
T ss_pred             CCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHH
Confidence            457789999998887665 44566777888889999999999999998887775543

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=82.76  E-value=17  Score=29.09  Aligned_cols=226  Identities=9%  Similarity=0.014  Sum_probs=129.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCc-----hhHHHHHHHHhhcC-ChhHHHHHHHHHHHhcCCCCHHHH------
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLP-----NAYNCVLVASAETN-DIDLSFQILKDLLVSSRTLSSDCY------   71 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~------   71 (287)
                      .|...|.+.|+.++..+++.....--...+     .....++..+.... ..+.-.++..+..+..-. ...+|      
T Consensus        24 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr~~l~  102 (394)
T 3txn_A           24 QQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLRQSLE  102 (394)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence            578889999999999999988765432222     24556777776643 344445555554432111 11222      


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHhcCCC-----CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC--CCCCCHhhHH--
Q 023133           72 TNFARAFIMTDDCTQLLIFIEEVVQIASP-----ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL--KCKPDLITYN--  142 (287)
Q Consensus        72 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~--  142 (287)
                      ..++..|...|++.+|.+++.++.+.=..     .-..++-.-+..|...+++.++...+......  .+.++.....  
T Consensus       103 ~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i  182 (394)
T 3txn_A          103 ARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGAL  182 (394)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHH
Confidence            25788899999999999999888764211     12345666778899999999999999776532  1223332221  


Q ss_pred             --HHHHHHH-hcCCHHHHHHHHHHHHHc-C-C-CC---ChhHHHHHHHHHHhcCchHHHHHHHH-HH-hhCCCcCCHHHH
Q 023133          143 --IVLDILG-RVGRVNDMLNEFASMKEA-G-V-VP---DFISYNTLLNNLRKIRRLDLCLIYFR-EM-GESGIKPDLLTY  211 (287)
Q Consensus       143 --~l~~~~~-~~~~~~~a~~~~~~~~~~-~-~-~~---~~~~~~~l~~~~~~~~~~~~a~~~~~-~~-~~~~~~~~~~~~  211 (287)
                        .-...+. ..++|..|...|-+..+. . . .|   +...|..+....  .++..+...++. .. ... ..|....+
T Consensus       183 ~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~~~~~~~~~~~lkYlvL~aLl--~~~r~el~~~l~~~~~~~~-~~pei~~l  259 (394)
T 3txn_A          183 DLQSGILHAADERDFKTAFSYFYEAFEGFDSVDSVKALTSLKYMLLCKIM--LGQSDDVNQLVSGKLAITY-SGRDIDAM  259 (394)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH--TTCGGGHHHHHHSHHHHTT-CSHHHHHH
T ss_pred             HHHhhHHHHHhccCHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHH--cCCHHHHHHHhcccccccc-CCccHHHH
Confidence              1122345 688999999888775421 1 1 11   122343333222  233223323221 11 111 24666666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Q 023133          212 TALIDSFGRTGNIEESLRLFNDM  234 (287)
Q Consensus       212 ~~l~~~~~~~g~~~~a~~~~~~~  234 (287)
                      ..++.+|. .+++.+...+++..
T Consensus       260 ~~L~~a~~-~~dl~~f~~iL~~~  281 (394)
T 3txn_A          260 KSVAEASH-KRSLADFQAALKEY  281 (394)
T ss_dssp             HHHHHHHH-TTCHHHHHHHHHHS
T ss_pred             HHHHHHHH-hCCHHHHHHHHHHH
Confidence            66666654 46666666655554

>2nsz_A Programmed cell death protein 4; PDCD4, tumor suppressor, translation, antitumor protein; 1.15A {Mus musculus} SCOP: a.118.1.14 PDB: 2kzt_B 2hm8_A 2ggf_A

Probab=82.53  E-value=5.4  Score=26.05  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=15.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHh
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLR   26 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~   26 (287)
                      +.++.-|...|+.++|.+.++++.
T Consensus        11 ~~ll~EY~~~~D~~Ea~~cl~eL~   34 (129)
T 2nsz_A           11 DMLLKEYLLSGDISEAEHCLKELE   34 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHhC
Confidence            345666666777777777776664

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=81.83  E-value=10  Score=27.25  Aligned_cols=20  Identities=25%  Similarity=0.350  Sum_probs=9.5

Q ss_pred             HHHHhcCChhHHHHHHHHHh
Q 023133            7 EKLCKAGNVSAAVRLLQSLR   26 (287)
Q Consensus         7 ~~~~~~g~~~~a~~~~~~~~   26 (287)
                      ...++.|+.+.+..+++.+.
T Consensus        14 ~~A~~~g~~~~v~~Ll~~~~   33 (241)
T 1k1a_A           14 HIAVVQGNLPAVHRLVNLFQ   33 (241)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            33444555555555554433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=81.74  E-value=16  Score=28.12  Aligned_cols=64  Identities=13%  Similarity=0.034  Sum_probs=33.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHH----------------HHHhC--CCCcchHhH-HHHHHHHHhcCChHHHHHHHH
Q 023133          207 DLLTYTALIDSFGRTGNIEESLRLFN----------------DMKQQ--QIRPSIYVY-RSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       207 ~~~~~~~l~~~~~~~g~~~~a~~~~~----------------~~~~~--~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~  267 (287)
                      ++.....+...|.+.|++.+|...|-                ...+.  |.+-+...| ...+-.|.-.|+...|..+|+
T Consensus       133 dp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dlf~~RaVL~yL~l~n~~~A~~~~~  212 (312)
T 2wpv_A          133 DPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAEFFSRLVFNYLFISNISFAHESKD  212 (312)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHTTBHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            45556666666666666666665431                11111  211111111 222233556788999988888


Q ss_pred             HHh
Q 023133          268 EMN  270 (287)
Q Consensus       268 ~~~  270 (287)
                      ...
T Consensus       213 ~f~  215 (312)
T 2wpv_A          213 IFL  215 (312)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=81.44  E-value=20  Score=29.17  Aligned_cols=100  Identities=14%  Similarity=0.145  Sum_probs=58.5

Q ss_pred             hcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC-----HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCCh
Q 023133          185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN-----IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKV  259 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  259 (287)
                      +.++.+.|..++.+|.+.|..|....-..+..+....|.     ...|...++....-|.+--.......+--++.+-+-
T Consensus       267 rgsd~daAl~~la~ml~~Gedp~~i~rrl~~~a~edig~a~p~a~~~~~~~~~~~~~~g~pe~~~~l~~~~~~la~~pks  346 (447)
T 3pvs_A          267 RGSAPDAALYWYARIITAGGDPLYVARRCLAIASEDVGNADPRAMQVAIAAWDCFTRVGPAEGERAIAQAIVYLACAPKS  346 (447)
T ss_dssp             HTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGGGCTHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSCCC
T ss_pred             hCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhcccCCChhHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHcCCcc
Confidence            457899999999999999877766666666666666664     445566666666666433222233233333444443


Q ss_pred             HHHHHHHHHH---hhcCCCCCChhhHhh
Q 023133          260 DLAMTIFEEM---NSSLSDLAGPKDFKR  284 (287)
Q Consensus       260 ~~a~~~~~~~---~~~~~~~~~~~~~~~  284 (287)
                      ..+...++.+   .+..+..+.|.|...
T Consensus       347 n~~~~a~~~a~~~~~~~~~~~vp~~l~~  374 (447)
T 3pvs_A          347 NAVYTAFKAALADARERPDYDVPVHLRN  374 (447)
T ss_dssp             CHHHHHHHHHHHHHHHSCCCCCCGGGSS
T ss_pred             hHHHHHHHHHHHHHHhcCCCCCChHHhC
Confidence            3444444333   334456666666543

>2r9g_A AAA ATPase, central region; structural genomics, PSI-2, protein structure initia YORK SGX research center for structural genomics, nysgxrc; 2.09A {Enterococcus faecium} SCOP: a.80.1.2 PDB: 2qw6_A

Probab=80.42  E-value=13  Score=26.31  Aligned_cols=54  Identities=11%  Similarity=0.194  Sum_probs=27.7

Q ss_pred             hcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC-----HHHHHHHHHHHHhCCC
Q 023133          185 KIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN-----IEESLRLFNDMKQQQI  239 (287)
Q Consensus       185 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----~~~a~~~~~~~~~~~~  239 (287)
                      +..+.+.|+.++.+|++.| .|....-..++.+....|.     ...|...++....-|.
T Consensus        26 RGSDpDAAly~LaRml~~G-Dp~~IaRRLvi~AsEDIGlAdP~Al~~a~aa~~a~~~iG~   84 (204)
T 2r9g_A           26 RGSDVDAALHYLARLVEAG-DLASICRRLMVIGYEDIGLGNPAAAARTVNAVLAAEKLGL   84 (204)
T ss_dssp             HTTCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHHTTGGGCHHHHHHHHHHHHHHHHHCT
T ss_pred             hcCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCC
Confidence            3456666666666666666 5544444444555544443     2233444444444453

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	287
d1fcha_	323	a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting	0.004

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]} Length = 323

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]

 Score = 35.9 bits (81), Expect = 0.004
 Identities = 35/293 (11%), Positives = 82/293 (27%), Gaps = 28/293 (9%)

Query: 8   KLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLS 67
           +  + G++  AV L ++   ++     A+  +    AE     L+   L+  L       
Sbjct: 28  RRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQ 87

Query: 68  SDCYTNFARAFIMTDDCTQLLIF-------------IEEVVQIASPESIIVVNRIIFAFA 114
           +            +       I              +    + A    +    RI+ +  
Sbjct: 88  TALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL 147

Query: 115 KSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFI 174
                 +   +F     L            L +L  +    D   +  +   +    D++
Sbjct: 148 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYL 207

Query: 175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDM 234
            +N L   L    + +  +  +R   E      + +   L  S    G   E++  F   
Sbjct: 208 LWNKLGATLANGNQSEEAVAAYRRALELQPG-YIRSRYNLGISCINLGAHREAVEHFL-- 264

Query: 235 KQQQIRPSIY--------VYRSLIDNLK----KMGKVDLAMTIFEEMNSSLSD 275
           +   ++            +  ++   L+     +G+ D          S+L  
Sbjct: 265 EALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARDLSTLLT 317

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	287
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.82
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.81
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.6
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.57
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.54
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.51
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.5
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.49
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.48
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.45
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.25
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.2
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.16
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.08
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.05
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.04
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.99
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.97
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.93
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.91
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.89
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.86
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.85
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.75
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.73
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.7
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.69
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.64
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.58
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.55
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.53
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.48
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.44
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.44
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.42
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.39
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.36
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.36
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.35
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.29
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.28
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.25
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.19
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.12
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.91
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.85
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.76
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.54
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.31
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	97.31
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.18
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.79
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.42
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.39
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.04
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.44
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	88.4
d2nsza1	129	Programmed cell death 4, PDCD4 {Mouse (Mus musculu	85.37
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	81.91
d3bgea1	184	Uncharacterized protein NTHI1458 {Haemophilus infl	81.17
d2f6ma1	64	Vacuolar protein sorting-associated protein 23, VP	80.69

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=1.7e-21  Score=154.85  Aligned_cols=268  Identities=13%  Similarity=0.118  Sum_probs=177.4

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      +...+.+.|++++|++.|+++.+..+..+.++..+..++.+.|++++|+..+++.++.. +-+..++..+..++...|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            34455666666677666666666654444566666666666666666666666666542 22445556666666666666


Q ss_pred             HHHHHHHHHHHhcCC-----------------------------------------------------------------
Q 023133           85 TQLLIFIEEVVQIAS-----------------------------------------------------------------   99 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~-----------------------------------------------------------------   99 (287)
                      ++|...+....+...                                                                 
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            666655544432211                                                                 


Q ss_pred             ------------------------------------CCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHH
Q 023133          100 ------------------------------------PESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNI  143 (287)
Q Consensus       100 ------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  143 (287)
                                                          |.+..++..+...+...|++++|...+++....+ +.+...+..
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  242 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGN  242 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHH
Confidence                                                2334445555555555666666666665555433 334455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC
Q 023133          144 VLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN  223 (287)
Q Consensus       144 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  223 (287)
                      +...+.+.|++++|...|++..+.... +..++..+...+...|++++|.+.++...... +.+...+..+...+...|+
T Consensus       243 l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  320 (388)
T d1w3ba_         243 LACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGN  320 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCC
Confidence            677777777777787777777665432 45677777777888888888888887776653 5566777788888888888


Q ss_pred             HHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          224 IEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       224 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      +++|++.|++..+.. +-+..++..+..++...|++++|.+.|+++.+..|+.+
T Consensus       321 ~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~  373 (388)
T d1w3ba_         321 IEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFA  373 (388)
T ss_dssp             HHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            888888888887642 33456778888888888999999999988888887664

>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=1.3e-16  Score=126.17  Aligned_cols=247  Identities=14%  Similarity=0.130  Sum_probs=209.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      ........+....+...+.......+.....+..+...+...|+++.|...+++.++.. +-+...+..+...+...|++
T Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~  219 (388)
T d1w3ba_         141 LGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCT
T ss_pred             ccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccH
Confidence            34455566777788888888777765555788889999999999999999999998763 33567888899999999999


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ++|...+++..+.. +.+...+..+...+.+.|++++|...|++..+.. +.+..++..+...+...|++++|...++..
T Consensus       220 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  297 (388)
T d1w3ba_         220 DRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTA  297 (388)
T ss_dssp             THHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence            99999999998876 5677888889999999999999999999988764 345678899999999999999999999998


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc-ch
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP-SI  243 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~  243 (287)
                      .... +.+...+..+...+...|++++|...+++..+.. +-+..++..+..+|...|++++|.+.|++..+.  .| +.
T Consensus       298 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--~P~~~  373 (388)
T d1w3ba_         298 LRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFA  373 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--CTTCH
T ss_pred             hccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            8764 3477888999999999999999999999998763 345678889999999999999999999999975  45 46


Q ss_pred             HhHHHHHHHHHhcCC
Q 023133          244 YVYRSLIDNLKKMGK  258 (287)
Q Consensus       244 ~~~~~li~~~~~~g~  258 (287)
                      ..|..+..++.+.||
T Consensus       374 ~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         374 DAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHcCC
Confidence            788889998888775

>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=99.81  E-value=3.1e-17  Score=127.29  Aligned_cols=238  Identities=11%  Similarity=0.049  Sum_probs=167.0

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      .......+.+.|++++|+..|++.++.. +-+..+|..+..++...|++++|...+++..+.. |.+...+..+...|..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccc
Confidence            3345666777888888888888877653 2346677777777788888888888888777765 4566777777777888


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHh----------------hHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCChhHHHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLI----------------TYNIVLDILGRVGRVNDMLNEFASMKEAGV-VPDFISYNT  178 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~----------------~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~  178 (287)
                      .|++++|.+.+++.....  |+..                .....+..+...+.+.+|...|....+... .++...+..
T Consensus       100 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~  177 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCG  177 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHH
T ss_pred             cccccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchh
Confidence            888888888887776542  2211                011122233445667778888877765432 234566777


Q ss_pred             HHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCC
Q 023133          179 LLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGK  258 (287)
Q Consensus       179 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  258 (287)
                      +...+...|++++|...+++..... +-+...|..+..+|...|++++|.+.|++..+.. +-+...+..+..+|.+.|+
T Consensus       178 l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         178 LGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCC
Confidence            7888888888888888888887653 3356778888888888888988888888887642 2346678888888888888


Q ss_pred             hHHHHHHHHHHhhcCCCCCCh
Q 023133          259 VDLAMTIFEEMNSSLSDLAGP  279 (287)
Q Consensus       259 ~~~a~~~~~~~~~~~~~~~~~  279 (287)
                      +++|.+.|+++.+..|+.+.+
T Consensus       256 ~~~A~~~~~~al~l~p~~~~~  276 (323)
T d1fcha_         256 HREAVEHFLEALNMQRKSRGP  276 (323)
T ss_dssp             HHHHHHHHHHHHHHHHTC---
T ss_pred             HHHHHHHHHHHHHhCCcChhh
Confidence            999988888888877766543

>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=99.80  E-value=1.5e-16  Score=123.39  Aligned_cols=256  Identities=14%  Similarity=0.062  Sum_probs=199.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      ....+.+.|++++|+..|+++.+.++....+|..+..++...|+++.|...+.+..+.. +-+...+..+..++...|++
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccc
Confidence            35568899999999999999999887766899999999999999999999999998764 33577888889999999999


Q ss_pred             HHHHHHHHHHHhcCCCC--------------cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCC-CCCHhhHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPE--------------SIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKC-KPDLITYNIVLDILG  149 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~  149 (287)
                      ++|.+.+++........              +.......+..+...+.+.+|...|.+..+... .++...+..+...+.
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~  183 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFN  183 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHH
T ss_pred             cccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHH
Confidence            99999999987654211              011112223345566778889999988765421 235567888889999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLR  229 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  229 (287)
                      ..|++++|...|++....... +...|..+...+...|++++|.+.+++..+.. +-+..++..+..+|.+.|++++|++
T Consensus       184 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~  261 (323)
T d1fcha_         184 LSGEYDKAVDCFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVE  261 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHhhhhcccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999999999876543 67889999999999999999999999998763 3456789999999999999999999


Q ss_pred             HHHHHHhC----------CCCcchHhHHHHHHHHHhcCChHHHH
Q 023133          230 LFNDMKQQ----------QIRPSIYVYRSLIDNLKKMGKVDLAM  263 (287)
Q Consensus       230 ~~~~~~~~----------~~~~~~~~~~~li~~~~~~g~~~~a~  263 (287)
                      .|++.++.          ........|..+-.++...|+.+.+.
T Consensus       262 ~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         262 HFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            99998762          01112234555666666667665544

>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=99.60  E-value=2e-12  Score=99.18  Aligned_cols=227  Identities=9%  Similarity=0.023  Sum_probs=171.0

Q ss_pred             hHHHHHHHHHHHhcCCCCHHHHHHHHHHHh--------------ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           50 DLSFQILKDLLVSSRTLSSDCYTNFARAFI--------------MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        50 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--------------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      +++..+|++++.. .+.++..|...+.-+.              ..+..+++..++++.++...+.+...|...+..+.+
T Consensus        33 ~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          33 KRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            4455666666654 2334555554443322              223457888899998876656777888889999999


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHH-HHhcCchHHHHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNN-LRKIRRLDLCLI  194 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~  194 (287)
                      .|+++.|..+|+++.+.........|...+..+.+.|++++|.++|+.+.+.+.. +...|...... +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHHHHH
Confidence            9999999999999987642223457889999999999999999999999887543 34444444333 344688999999


Q ss_pred             HHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCcc--hHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          195 YFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ-IRPS--IYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       195 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      +|+.+.+.. +.+...|...++.+.+.|+++.|..+|++..+.. ..|+  ...|...+.--...|+.+.+.++++++.+
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999998762 4567789999999999999999999999988753 3443  35788888877888999999999999988


Q ss_pred             cCCCCCCh
Q 023133          272 SLSDLAGP  279 (287)
Q Consensus       272 ~~~~~~~~  279 (287)
                      ..|.....
T Consensus       270 ~~~~~~~~  277 (308)
T d2onda1         270 AFREEYEG  277 (308)
T ss_dssp             HTTTTTSS
T ss_pred             HCcccccc
Confidence            88876543

>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=99.57  E-value=9.9e-12  Score=96.61  Aligned_cols=268  Identities=7%  Similarity=-0.045  Sum_probs=197.1

Q ss_pred             HHHHHhcCChhHHHHHHHHHhhcCCCCc-----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCC-CC----HHHHHHHH
Q 023133            6 IEKLCKAGNVSAAVRLLQSLRDKNIFLP-----NAYNCVLVASAETNDIDLSFQILKDLLVSSRT-LS----SDCYTNFA   75 (287)
Q Consensus         6 i~~~~~~g~~~~a~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l~   75 (287)
                      ...+...|++++|++++++..+..+..+     .++..+..++...|++++|+..+++....... ++    ...+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            4567889999999999999887655433     35777888999999999999999998754221 12    23455666


Q ss_pred             HHHhccCChHHHHHHHHHHHhc----CCCC---cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CCCCCHhhHHHH
Q 023133           76 RAFIMTDDCTQLLIFIEEVVQI----ASPE---SIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KCKPDLITYNIV  144 (287)
Q Consensus        76 ~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l  144 (287)
                      ..+...|++..+...+......    +.+.   ....+..+...+...|+++.+...+......    +......++..+
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            7788899999999999877542    1111   2345667778899999999999999887643    222233455666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHc----CCCC--ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc---CCHHHHHHHH
Q 023133          145 LDILGRVGRVNDMLNEFASMKEA----GVVP--DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIK---PDLLTYTALI  215 (287)
Q Consensus       145 ~~~~~~~~~~~~a~~~~~~~~~~----~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~  215 (287)
                      ...+...+.+..+...+......    +..+  ....+......+...|++++|...+....+....   .....+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            77788899999999888876442    1111  1234566677788899999999999988754322   2244566788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh----CCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcC
Q 023133          216 DSFGRTGNIEESLRLFNDMKQ----QQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSL  273 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  273 (287)
                      .++...|++++|...+++...    .+..|+ ...+..+...+...|++++|.+.+++.....
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~  321 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLA  321 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            899999999999999998863    244444 4567888889999999999999999986643

>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=99.54  E-value=1e-11  Score=95.26  Aligned_cols=193  Identities=10%  Similarity=0.065  Sum_probs=100.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC-ChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN-DIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +.+...+.+.+.+++|+++++++.+.++....+|+....++...| ++++|+..++..++.. +-+..+|..+...+.+.
T Consensus        47 ~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l  125 (315)
T d2h6fa1          47 DYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWL  125 (315)
T ss_dssp             HHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhh
Confidence            334444555556666666666666655444455555555555544 3566666666655542 22345555555555666


Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC------HH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR------VN  155 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------~~  155 (287)
                      |++++|+..++++++.. +.+..+|..+...+.+.|++++|++.++++.+.. +.+...|+.+..++.+.+.      ++
T Consensus       126 ~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~~~  203 (315)
T d2h6fa1         126 RDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAVLE  203 (315)
T ss_dssp             TCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHHHH
T ss_pred             ccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhhhH
Confidence            66666666666665554 4455566666666666666666666666655543 2244455544444443333      45


Q ss_pred             HHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHh
Q 023133          156 DMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMG  200 (287)
Q Consensus       156 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  200 (287)
                      +|+..+....+.... +...|..+...+.. ...+++.+.+....
T Consensus       204 ~ai~~~~~al~~~P~-~~~~~~~l~~ll~~-~~~~~~~~~~~~~~  246 (315)
T d2h6fa1         204 REVQYTLEMIKLVPH-NESAWNYLKGILQD-RGLSKYPNLLNQLL  246 (315)
T ss_dssp             HHHHHHHHHHHHSTT-CHHHHHHHHHHHTT-TCGGGCHHHHHHHH
T ss_pred             HhHHHHHHHHHhCCC-chHHHHHHHHHHHh-cChHHHHHHHHHHH
Confidence            555555555544322 44444444443332 22344444444443

>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=99.51  E-value=1.8e-11  Score=93.70  Aligned_cols=221  Identities=9%  Similarity=-0.002  Sum_probs=171.1

Q ss_pred             hhHHHHHHHHHhhcCCCCchhHHHHHHHHhhc--------------CChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhc
Q 023133           15 VSAAVRLLQSLRDKNIFLPNAYNCVLVASAET--------------NDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIM   80 (287)
Q Consensus        15 ~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~   80 (287)
                      .+.+..+|++.....+..+..|..-+..+.+.              +..++|..+|++..+...+.+...+...+....+
T Consensus        32 ~~Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          32 TKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            45577789988887766656666655544322              3357888899998865445566677888888889


Q ss_pred             cCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHH-HHhcCCHHHHHH
Q 023133           81 TDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDI-LGRVGRVNDMLN  159 (287)
Q Consensus        81 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~~  159 (287)
                      .|+++.|..+++++++........+|...+....+.|+++.|.++|+++.+.+ +.+...|...... +...|+.+.|..
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHH
Confidence            99999999999999987644445689999999999999999999999998775 2344444444333 345689999999


Q ss_pred             HHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC-CcCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          160 EFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG-IKPD--LLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       160 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      +|+.+.+.. +.+...|...+..+.+.|+.+.|..+|++..... ..|.  ...|...+..-...|+.+.+.++++++.+
T Consensus       191 i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         191 IFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999998863 3367889999999999999999999999987653 3332  45788888888889999999999998875


Q ss_pred             C
Q 023133          237 Q  237 (287)
Q Consensus       237 ~  237 (287)
                      .
T Consensus       270 ~  270 (308)
T d2onda1         270 A  270 (308)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.50  E-value=6.1e-12  Score=96.57  Aligned_cols=233  Identities=12%  Similarity=0.100  Sum_probs=183.3

Q ss_pred             hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Q 023133           34 NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTD-DCTQLLIFIEEVVQIASPESIIVVNRIIFA  112 (287)
Q Consensus        34 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  112 (287)
                      .+++.+...+.+.+.+++|+.+++++++.+ +-+...|+....++...+ ++++|+..++..++.. +.+..+|+.+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            577788888899999999999999999863 335667888888887766 5899999999999887 6778999999999


Q ss_pred             HHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCc----
Q 023133          113 FAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRR----  188 (287)
Q Consensus       113 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----  188 (287)
                      +.+.|++++|+..++++.+.. +.+...|..+...+.+.|++++|+..++.+.+.++. +...|+.+...+.+.+.    
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            999999999999999998764 456889999999999999999999999999987654 67788877777666554    


Q ss_pred             --hHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-cchHhHHHHHHHHHh--cCChHHHH
Q 023133          189 --LDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR-PSIYVYRSLIDNLKK--MGKVDLAM  263 (287)
Q Consensus       189 --~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~--~g~~~~a~  263 (287)
                        +++|.+.+....+.. +.+...|..+...+.. ...+++.+.++...+.... .+...+..++..|..  .+..+.+.
T Consensus       200 ~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~  277 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKE  277 (315)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             hhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHH
Confidence              578899898888764 4467777777666554 4467888888887754222 234556667776654  36777788


Q ss_pred             HHHHHHhhc
Q 023133          264 TIFEEMNSS  272 (287)
Q Consensus       264 ~~~~~~~~~  272 (287)
                      ..+++....
T Consensus       278 ~~~~ka~~l  286 (315)
T d2h6fa1         278 DILNKALEL  286 (315)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888877654

>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=99.49  E-value=1.5e-12  Score=97.19  Aligned_cols=95  Identities=12%  Similarity=-0.028  Sum_probs=45.9

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           71 YTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        71 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      +..+..++.+.|++++|...|++.++.. |.++.+|+.+..+|.+.|++++|+..|+++.+.. +.+..++..+..++..
T Consensus        40 ~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          40 LYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHHHHHH
Confidence            3334444445555555555555554443 3344455555555555555555555555554432 1223344444455555


Q ss_pred             cCCHHHHHHHHHHHHHc
Q 023133          151 VGRVNDMLNEFASMKEA  167 (287)
Q Consensus       151 ~~~~~~a~~~~~~~~~~  167 (287)
                      .|++++|...|+...+.
T Consensus       118 ~g~~~~A~~~~~~al~~  134 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD  134 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh
Confidence            55555555555554443

>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=99.48  E-value=3.1e-13  Score=105.00  Aligned_cols=257  Identities=9%  Similarity=0.015  Sum_probs=183.9

Q ss_pred             HhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHh----------hcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHh
Q 023133           10 CKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASA----------ETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFI   79 (287)
Q Consensus        10 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~----------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~   79 (287)
                      ...+..++|+++++.....+|....+|+..-..+.          ..|.+++|+..++..++.. +-+...|..+..++.
T Consensus        40 ~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~  118 (334)
T d1dcea1          40 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLS  118 (334)
T ss_dssp             HTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHH
Confidence            33344589999999999888665456654333322          3345788999999888763 335666666666665


Q ss_pred             ccC--ChHHHHHHHHHHHhcCCCCcHHHHH-HHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHH
Q 023133           80 MTD--DCTQLLIFIEEVVQIASPESIIVVN-RIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVND  156 (287)
Q Consensus        80 ~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  156 (287)
                      ..+  +++++...++++.+.. +++...+. .....+...+.+++|...++.+.+.. +-+...|+.+..++.+.|++++
T Consensus       119 ~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         119 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHH
Confidence            554  5889999999998876 44555544 45567778899999999999988775 4567788889999999998887


Q ss_pred             HHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          157 MLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       157 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      |...+....+..  |+   .......+...+..+++...+....... +++...+..+...+...|+.++|...+.+..+
T Consensus       197 A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            766655544321  11   1223334455677777888887776653 44455666677778888999999999998887


Q ss_pred             CCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCC
Q 023133          237 QQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDL  276 (287)
Q Consensus       237 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  276 (287)
                      .. +.+...+..+..++...|++++|.++++++....|+.
T Consensus       271 ~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~  309 (334)
T d1dcea1         271 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMR  309 (334)
T ss_dssp             TC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGG
T ss_pred             hC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCccc
Confidence            53 3356678888888999999999999999999988854

>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=99.45  E-value=1.1e-11  Score=92.29  Aligned_cols=217  Identities=6%  Similarity=-0.080  Sum_probs=147.8

Q ss_pred             CChhHHHHHHHHHhhcCCCCc----hhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHH
Q 023133           13 GNVSAAVRLLQSLRDKNIFLP----NAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus        13 g~~~~a~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      .+.+.++.-+++........+    .+|..+..+|.+.|++++|+..|++.+... +-+..+|..+..++...|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            445667777777766543322    578888999999999999999999999863 346788999999999999999999


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133           89 IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      ..|+++++.. |.+..++..+..+|...|++++|...|+...+.. +.+......+..++.+.+..+.+..+........
T Consensus        92 ~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (259)
T d1xnfa_          92 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD  169 (259)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC
T ss_pred             hhhhHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc
Confidence            9999999987 5667889999999999999999999999987764 3344444444455556666666665555555542


Q ss_pred             CCCChhHHHHHHHHHHhcCc----hHHHHHHHHHHhhCCCcCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 023133          169 VVPDFISYNTLLNNLRKIRR----LDLCLIYFREMGESGIKPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       169 ~~~~~~~~~~l~~~~~~~~~----~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .  +...++ ++..+.....    .+.+...+......  .|+ ..+|..+...|...|++++|.+.|++.++.
T Consensus       170 ~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         170 K--EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             C--CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             h--hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            2  222222 2222222111    11121111111111  122 235666777888888888888888888764

>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=99.25  E-value=9.4e-12  Score=96.45  Aligned_cols=233  Identities=10%  Similarity=-0.026  Sum_probs=174.0

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcC--ChhHHHHHHHHHHHhcCCCCHHHHH-HHHHHHhccCChHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETN--DIDLSFQILKDLLVSSRTLSSDCYT-NFARAFIMTDDCTQL   87 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a   87 (287)
                      ..|++++|+..++.....++.....|..+..++...+  ++++|+..+.+..... +++...+. .....+...+.++.|
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHH
Confidence            3456789999999999988776678888877776665  4789999999998864 33455544 445677788999999


Q ss_pred             HHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133           88 LIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      +..++.+++.. +.+...|+.+...+.+.|++++|...+....+.  .|+.   ......+...+..+++...+......
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            99999999887 578889999999999999998876665544322  1211   22333455566777788888887765


Q ss_pred             CCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcch-HhH
Q 023133          168 GVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSI-YVY  246 (287)
Q Consensus       168 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~  246 (287)
                      .. ++...+..+...+...++.++|...+.+..+.. +.+...+..+..++...|++++|.+.++++.+.  .|+. ..|
T Consensus       238 ~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~  313 (334)
T d1dcea1         238 RA-EPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYL  313 (334)
T ss_dssp             CC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHH
T ss_pred             Cc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHH
Confidence            43 355566677778888899999999999988764 335567888999999999999999999999985  5654 455


Q ss_pred             HHHHHHHH
Q 023133          247 RSLIDNLK  254 (287)
Q Consensus       247 ~~li~~~~  254 (287)
                      ..+...+.
T Consensus       314 ~~L~~~~~  321 (334)
T d1dcea1         314 DDLRSKFL  321 (334)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55554443

>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=99.20  E-value=2.1e-08  Score=77.25  Aligned_cols=238  Identities=10%  Similarity=0.003  Sum_probs=169.9

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHhcCC--C---CcHHH
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLS----SDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS--P---ESIIV  105 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~  105 (287)
                      ........+...|++++|++++++.+......+    ...+..+..++...|++++|...+++..+...  .   .....
T Consensus        14 ~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   93 (366)
T d1hz4a_          14 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   93 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            344456678899999999999999987532212    23566778889999999999999998875421  1   12345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhc----CCCCC--C-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCC----CCChh
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKG----LKCKP--D-LITYNIVLDILGRVGRVNDMLNEFASMKEAGV----VPDFI  174 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~--~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~  174 (287)
                      +..+...+...|++..+...+.....    .+...  . ...+..+...+...|+++.+...+........    .....
T Consensus        94 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  173 (366)
T d1hz4a_          94 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  173 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHH
Confidence            66777889999999999998877643    11111  1 22456677888899999999999988865432    22334


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhh----CCCcC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC---cchHh
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGE----SGIKP--DLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIR---PSIYV  245 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~  245 (287)
                      ++......+...++...+...+.+...    .+..+  ....+..+...+...|++++|...+....+....   .....
T Consensus       174 ~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  253 (366)
T d1hz4a_         174 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  253 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHH
Confidence            556666778888999998888877653    11111  1234566677888999999999999987754222   22345


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhc
Q 023133          246 YRSLIDNLKKMGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       246 ~~~li~~~~~~g~~~~a~~~~~~~~~~  272 (287)
                      +..+..++...|++++|...++++...
T Consensus       254 ~~~la~~~~~~g~~~~A~~~~~~al~~  280 (366)
T d1hz4a_         254 WRNIARAQILLGEFEPAEIVLEELNEN  280 (366)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            666788899999999999999988643

>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=99.16  E-value=9.3e-10  Score=83.23  Aligned_cols=198  Identities=8%  Similarity=-0.035  Sum_probs=104.5

Q ss_pred             HHHHhccCChHHHHHHHHHHHhc----CCC-CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC----CC-CCCHhhHHHH
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQI----ASP-ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGL----KC-KPDLITYNIV  144 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~l  144 (287)
                      ...|...+++++|.+.|.++.+.    +.+ ....+|..+..+|.+.|++++|.+.+++..+.    |. .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            34566666777777776665542    111 12346666677777777777777776654331    10 0112234455


Q ss_pred             HHHHHh-cCCHHHHHHHHHHHHHc----CCCC-ChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc-----CCH-HHHH
Q 023133          145 LDILGR-VGRVNDMLNEFASMKEA----GVVP-DFISYNTLLNNLRKIRRLDLCLIYFREMGESGIK-----PDL-LTYT  212 (287)
Q Consensus       145 ~~~~~~-~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~-~~~~  212 (287)
                      ...|.. .|++++|++.+++..+.    +..+ -..++..+...+...|++++|...|+++......     ... ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            555533 47777777777665431    1111 1234566667777777777777777776543211     111 1223


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC-cc---hHhHHHHHHHHHh--cCChHHHHHHHHHHhhc
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMKQQQIR-PS---IYVYRSLIDNLKK--MGKVDLAMTIFEEMNSS  272 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~---~~~~~~li~~~~~--~g~~~~a~~~~~~~~~~  272 (287)
                      ..+.++...|+++.|.+.+++..+.... ++   ......++.++..  .+.+++|+..|+++.+.
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            3444556667777777777776654211 11   2233445555443  23466676666655433

>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=99.08  E-value=1.9e-08  Score=75.85  Aligned_cols=201  Identities=8%  Similarity=0.014  Sum_probs=134.9

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhc----CCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCC-----CCcHHH
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSS----RTL-SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIAS-----PESIIV  105 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~  105 (287)
                      |......|...+++++|.+.|.+..+..    .++ -..+|..+..+|.+.|++++|.+.+++..+...     .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            4444667888889999999988876532    111 235778888889999999999999987764321     122456


Q ss_pred             HHHHHHHHHh-cCCHHHHHHHHHHHhc----CCCCCC-HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCh------
Q 023133          106 VNRIIFAFAK-SRQIEKALLIFDHIKG----LKCKPD-LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDF------  173 (287)
Q Consensus       106 ~~~l~~~~~~-~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------  173 (287)
                      +..+...|.. .|++++|.+.+++..+    .+-++. ..++..+...+...|++++|...|++..........      
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~  199 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLK  199 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHH
Confidence            6667767744 6999999999987643    221221 346788889999999999999999998765322111      


Q ss_pred             hHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc-CC---HHHHHHHHHHHHh--cCCHHHHHHHHHHHHh
Q 023133          174 ISYNTLLNNLRKIRRLDLCLIYFREMGESGIK-PD---LLTYTALIDSFGR--TGNIEESLRLFNDMKQ  236 (287)
Q Consensus       174 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~---~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~  236 (287)
                      ..+...+..+...|+++.|...+++..+.... ++   ......++.++..  .+.+++|+..|+.+.+
T Consensus       200 ~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         200 DYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            12344555667789999999999998765311 11   2244566666655  3458888888876554

>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=99.05  E-value=2.2e-08  Score=70.54  Aligned_cols=126  Identities=6%  Similarity=-0.029  Sum_probs=86.1

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI  119 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  119 (287)
                      ...+...|+++.|++.|.++    .+|+..++..+..++...|++++|++.|++.++.. +.....|..+..+|.+.|++
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            44556777788887777653    35666777777778888888888888888887776 56677777788888888888


Q ss_pred             HHHHHHHHHHhcCC------------CCC---CHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 023133          120 EKALLIFDHIKGLK------------CKP---DLITYNIVLDILGRVGRVNDMLNEFASMKEAGVV  170 (287)
Q Consensus       120 ~~a~~~~~~~~~~~------------~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  170 (287)
                      ++|...|++.....            ...   ...++..+..++.+.|++++|.+.+....+....
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            88888777765321            000   0134455666777777777777777776665433

>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=99.04  E-value=3e-08  Score=69.83  Aligned_cols=123  Identities=9%  Similarity=-0.001  Sum_probs=70.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchH
Q 023133          111 FAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLD  190 (287)
Q Consensus       111 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  190 (287)
                      ..+...|++++|++.|.++.    +|+..+|..+..+|...|++++|++.|++..+.+.. +...|..+..++.+.|+++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~~   87 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKYD   87 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccHH
Confidence            34455555566655555432    344455555555555666666666666555554332 4455555555555566666


Q ss_pred             HHHHHHHHHhhCC------------C--cCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          191 LCLIYFREMGESG------------I--KPD-LLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       191 ~a~~~~~~~~~~~------------~--~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      +|...|++.....            .  .++ ..++..+..++.+.|++++|.+.+....+..
T Consensus        88 ~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          88 LAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            6655555544310            0  111 2445567778888899999988888887653

>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=98.99  E-value=7.7e-09  Score=66.61  Aligned_cols=97  Identities=11%  Similarity=0.074  Sum_probs=58.0

Q ss_pred             HHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCCh
Q 023133          180 LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKV  259 (287)
Q Consensus       180 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  259 (287)
                      ...+.+.|++++|..+|.+.++.. +.+...|..+..+|...|++++|+..+....+.+ +.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            344555666666666666665543 3445556666666666666666666666666542 33455566666666666666


Q ss_pred             HHHHHHHHHHhhcCCCCCC
Q 023133          260 DLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       260 ~~a~~~~~~~~~~~~~~~~  278 (287)
                      ++|...|++..+..|+++.
T Consensus        88 ~~A~~~~~~a~~~~p~~~~  106 (117)
T d1elwa_          88 EEAKRTYEEGLKHEANNPQ  106 (117)
T ss_dssp             HHHHHHHHHHHTTCTTCHH
T ss_pred             HHHHHHHHHHHHhCCCCHH
Confidence            6666666666666665543

>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=98.97  E-value=1.9e-08  Score=64.74  Aligned_cols=91  Identities=14%  Similarity=0.051  Sum_probs=56.5

Q ss_pred             HHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCH
Q 023133           40 LVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQI  119 (287)
Q Consensus        40 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  119 (287)
                      ...+.+.|++++|+..|++.++.. +-+...|..+..++...|++++|+..+++.++.. |.+...|..+..++...|++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            445556666666666666666542 3345556666666666666666666666666655 45556666666666666666


Q ss_pred             HHHHHHHHHHhcC
Q 023133          120 EKALLIFDHIKGL  132 (287)
Q Consensus       120 ~~a~~~~~~~~~~  132 (287)
                      ++|+..|++..+.
T Consensus        88 ~~A~~~~~~a~~~  100 (117)
T d1elwa_          88 EEAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHh
Confidence            6666666666654

>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=98.93  E-value=4.9e-08  Score=66.50  Aligned_cols=92  Identities=11%  Similarity=0.043  Sum_probs=56.6

Q ss_pred             HHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCC
Q 023133           39 VLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQ  118 (287)
Q Consensus        39 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  118 (287)
                      ....+.+.|++++|+..|++.++.. +-+...|..+..++...|++++|...|+++++.. +.+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3445556666666666666666543 2345556666666666666666666666666654 4455566666666666666


Q ss_pred             HHHHHHHHHHHhcC
Q 023133          119 IEKALLIFDHIKGL  132 (287)
Q Consensus       119 ~~~a~~~~~~~~~~  132 (287)
                      +++|...+++..+.
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            66666666666554

>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=98.91  E-value=9.9e-09  Score=72.86  Aligned_cols=100  Identities=9%  Similarity=-0.051  Sum_probs=85.7

Q ss_pred             CCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          136 PDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       136 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      |+...+......+.+.|++++|+..|.+..+.... +...|..+..+|.+.|++++|...|...++.. +-+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHH
Confidence            67777778888999999999999999998887543 77889999999999999999999999998763 33577888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 023133          216 DSFGRTGNIEESLRLFNDMKQQ  237 (287)
Q Consensus       216 ~~~~~~g~~~~a~~~~~~~~~~  237 (287)
                      .+|...|++++|+..|++..+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l  101 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSL  101 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999999999999988753

>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=98.89  E-value=9.4e-08  Score=65.04  Aligned_cols=92  Identities=14%  Similarity=0.196  Sum_probs=66.3

Q ss_pred             HHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCH
Q 023133           75 ARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRV  154 (287)
Q Consensus        75 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  154 (287)
                      ...+.+.|++++|...|+++++.. |.+...|..+..+|...|++++|...|++..+.. +.+..+|..+..++...|++
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            445667777777777777777776 5667777777777777777777777777776653 33556777777777777777


Q ss_pred             HHHHHHHHHHHHcC
Q 023133          155 NDMLNEFASMKEAG  168 (287)
Q Consensus       155 ~~a~~~~~~~~~~~  168 (287)
                      ++|...+++.....
T Consensus        95 ~eA~~~~~~a~~~~  108 (159)
T d1a17a_          95 RAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcC
Confidence            77777777776653

>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=98.86  E-value=5.2e-08  Score=69.01  Aligned_cols=99  Identities=8%  Similarity=0.032  Sum_probs=69.9

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHH
Q 023133           66 LSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVL  145 (287)
Q Consensus        66 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  145 (287)
                      |+...+......+.+.|++++|+..|+++++.. |.+...|+.+..+|.+.|++++|+..|++..+.. +-+..+|..+.
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            455555666677777777777777777777765 5666777777777777777777777777776653 22455677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 023133          146 DILGRVGRVNDMLNEFASMKE  166 (287)
Q Consensus       146 ~~~~~~~~~~~a~~~~~~~~~  166 (287)
                      .+|.+.|++++|+..|+...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777777654

>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=98.85  E-value=1.4e-08  Score=65.68  Aligned_cols=100  Identities=13%  Similarity=0.058  Sum_probs=54.1

Q ss_pred             HHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCcc-hHhHHHHHHHH
Q 023133          178 TLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN---IEESLRLFNDMKQQQIRPS-IYVYRSLIDNL  253 (287)
Q Consensus       178 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~  253 (287)
                      .++..+...+++++|.+.|++..+.+ +.+..++..+..++.+.++   +++|+.+++++.+.+..|+ ..++..+..+|
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            34455555566666666666665543 3445555555555554333   3346666666555432222 12455555666


Q ss_pred             HhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          254 KKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       254 ~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .+.|++++|.+.|+++.+..|+++.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~~~~  107 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQNNQ  107 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHhhhHHHHHHHHHHHHhCcCCHH
Confidence            6666666666666666666665543

>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=98.75  E-value=1.3e-07  Score=60.10  Aligned_cols=92  Identities=7%  Similarity=0.047  Sum_probs=61.0

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK  115 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  115 (287)
                      +..+...+.+.|++++|+..|++.+... +-+...|..+..++.+.+++++|+..+++.++.. |.+..++..+...|..
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHH
Confidence            3445556666777777777777776653 2246666666777777777777777777776665 4556666667777777


Q ss_pred             cCCHHHHHHHHHHH
Q 023133          116 SRQIEKALLIFDHI  129 (287)
Q Consensus       116 ~~~~~~a~~~~~~~  129 (287)
                      .|++++|.+.+++.
T Consensus        97 ~g~~~~A~~~l~~~  110 (112)
T d1hxia_          97 EHNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            77777777776654

>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=98.73  E-value=5.5e-08  Score=62.77  Aligned_cols=95  Identities=13%  Similarity=0.091  Sum_probs=48.2

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCC---hhHHHHHHHHHHHhcCCCC-HHHHHHHHHHHh
Q 023133            4 GYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETND---IDLSFQILKDLLVSSRTLS-SDCYTNFARAFI   79 (287)
Q Consensus         4 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~   79 (287)
                      .+++.+...+++++|.+.|++....++..+.++..+..++.+.++   +++|+.+++++...+..|+ ..++..+..+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            345555555555555555555555554444555555555554332   3345555555544332222 124444555555


Q ss_pred             ccCChHHHHHHHHHHHhcC
Q 023133           80 MTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~   98 (287)
                      +.|++++|.+.|+++++..
T Consensus        84 ~~g~~~~A~~~~~~aL~~~  102 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQTE  102 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhhHHHHHHHHHHHHhC
Confidence            5555555555555555543

>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=98.70  E-value=1.9e-05  Score=58.04  Aligned_cols=110  Identities=12%  Similarity=0.009  Sum_probs=48.6

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCH
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR----TGNI  224 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  224 (287)
                      ....+...+......+   +...+..+...+..    ..+...+...++...+.|   +......|...|..    ..++
T Consensus       125 ~~~~a~~~~~~~~~~~---~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~  198 (265)
T d1ouva_         125 DFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNF  198 (265)
T ss_dssp             CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCH
T ss_pred             hhHHHHHHhhhhhccc---ccchhhhhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccch
Confidence            3444444444444332   33344444444443    233444444444444433   33333334333333    3455


Q ss_pred             HHHHHHHHHHHhCCCCcchHhHHHHHHHHHh----cCChHHHHHHHHHHhh
Q 023133          225 EESLRLFNDMKQQQIRPSIYVYRSLIDNLKK----MGKVDLAMTIFEEMNS  271 (287)
Q Consensus       225 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~  271 (287)
                      ++|..+|.+..+.|   ++..+..|...|.+    ..+.++|.++|++...
T Consensus       199 ~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~  246 (265)
T d1ouva_         199 KEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCK  246 (265)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHH
T ss_pred             hhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHH
Confidence            55555555555544   23333344444432    2245555555555533

>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=98.69  E-value=1.7e-07  Score=59.62  Aligned_cols=89  Identities=13%  Similarity=0.110  Sum_probs=52.4

Q ss_pred             HHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCC
Q 023133           74 FARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGR  153 (287)
Q Consensus        74 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (287)
                      +...+.+.|++++|...+++.++.. |.+..+|..+..++.+.|++++|+..|++..+.. +.+...|..+..+|...|+
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            3445555666666666666666554 3455666666666666666666666666655543 2344555566666666666


Q ss_pred             HHHHHHHHHHH
Q 023133          154 VNDMLNEFASM  164 (287)
Q Consensus       154 ~~~a~~~~~~~  164 (287)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666553

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=98.64  E-value=2.8e-05  Score=57.04  Aligned_cols=221  Identities=11%  Similarity=0.040  Sum_probs=159.1

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhh----cCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHH
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAE----TNDIDLSFQILKDLLVSSRTLSSDCYTNFARAF   78 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~   78 (287)
                      ..|...+.+.|++++|++.|++..+.|..  .++..|...|..    ..+...+...+......+   +......+...+
T Consensus         6 ~~lG~~~~~~~d~~~A~~~~~kAa~~g~~--~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~   80 (265)
T d1ouva_           6 VGLGAKSYKEKDFTQAKKYFEKACDLKEN--SGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLY   80 (265)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcccccc
Confidence            34667788899999999999999887632  467777777765    668889998888887665   333344444433


Q ss_pred             h----ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh----cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHh
Q 023133           79 I----MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAK----SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGR  150 (287)
Q Consensus        79 ~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  150 (287)
                      .    ...+.+.|...++...+.|. +  .....+...+..    ......+...+......   .+...+..|...+..
T Consensus        81 ~~~~~~~~~~~~a~~~~~~a~~~g~-~--~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          81 YSGQGVSQNTNKALQYYSKACDLKY-A--EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTTC-H--HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHHHHHhhhhhhhh-h--hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhcc
Confidence            3    35688899999999988773 2  223333333433    44577888888877653   466677778777775


Q ss_pred             ----cCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh--
Q 023133          151 ----VGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR--  220 (287)
Q Consensus       151 ----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--  220 (287)
                          ..+...+...++...+.|   +..+...+...|..    ..+.++|..+|.+..+.|   +...+..|...|.+  
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~  228 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGE  228 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTS
T ss_pred             CCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCC
Confidence                457788888888888765   55666667666665    568999999999998886   45566677777775  


Q ss_pred             --cCCHHHHHHHHHHHHhCCCC
Q 023133          221 --TGNIEESLRLFNDMKQQQIR  240 (287)
Q Consensus       221 --~g~~~~a~~~~~~~~~~~~~  240 (287)
                        ..+.++|.++|++..+.|..
T Consensus       229 g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         229 GVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             SSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CCccCHHHHHHHHHHHHHCcCH
Confidence              44789999999999887733

>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=98.58  E-value=5.6e-07  Score=61.77  Aligned_cols=112  Identities=10%  Similarity=-0.032  Sum_probs=79.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-CC-------------hhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCc
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVV-PD-------------FISYNTLLNNLRKIRRLDLCLIYFREMGESGIK  205 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  205 (287)
                      .+......+.+.|++++|+..|.+....... +.             ..+|+.+..+|.+.|++++|...++..++.. +
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p   93 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-S   93 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-c
Confidence            4455667888999999999999988764211 11             2345667777888888888888888888764 4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCc-chHhHHHHHHHHH
Q 023133          206 PDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRP-SIYVYRSLIDNLK  254 (287)
Q Consensus       206 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~  254 (287)
                      .+..++..+..+|...|++++|...|++..+.  .| +......+.....
T Consensus        94 ~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~  141 (170)
T d1p5qa1          94 NNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQ  141 (170)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHH
T ss_pred             cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            46778888888888888888888888888774  34 4444444444433

>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=98.55  E-value=3.2e-06  Score=57.84  Aligned_cols=61  Identities=8%  Similarity=-0.030  Sum_probs=31.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          106 VNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       106 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      |+.+..+|.+.|++++|+..++...+.. +.+...|..+..+|...|++++|...|+...+.
T Consensus        65 ~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          65 HLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            4445555555555555555555554432 224445555555555555555555555555443

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.53  E-value=1.4e-06  Score=58.64  Aligned_cols=120  Identities=7%  Similarity=0.020  Sum_probs=75.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                      .+..-...+.+.|++++|+..|.+....-.....             .. +....  ....    .....+|..+..+|.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~-------------~~-~~~~~--~~~~----~~~~~~~~Nla~~~~   78 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEE-------------WD-DQILL--DKKK----NIEISCNLNLATCYN   78 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTT-------------CC-CHHHH--HHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhh-------------hh-hHHHH--Hhhh----hHHHHHHhhHHHHHH
Confidence            3444556677778888888777776653110000             00 00000  0000    011245667777888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          220 RTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       220 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      +.|++++|++.++..++.. +.+...|..+..++...|++++|...|++..+..|+++...
T Consensus        79 ~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~  138 (153)
T d2fbna1          79 KNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIR  138 (153)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHH
T ss_pred             Hhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHH
Confidence            8888888888888887653 44667888888888888888888888888888888766543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.48  E-value=2.4e-06  Score=55.45  Aligned_cols=93  Identities=8%  Similarity=0.104  Sum_probs=53.9

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCC-C-----HHHHHHHHHHH
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTL-S-----SDCYTNFARAF   78 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-----~~~~~~l~~~~   78 (287)
                      +...+.+.|++++|+..|++..+.++....++..+..+|.+.|++++|+..++++++..... .     ..+|..+...+
T Consensus        10 ~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          10 LGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            44556666666666666666666655444666666666666666666666666665432110 1     12344455555


Q ss_pred             hccCChHHHHHHHHHHHhc
Q 023133           79 IMTDDCTQLLIFIEEVVQI   97 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~   97 (287)
                      ...+++++|...|++....
T Consensus        90 ~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            5556666666666655543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.45  E-value=2.7e-06  Score=55.20  Aligned_cols=51  Identities=8%  Similarity=0.150  Sum_probs=20.2

Q ss_pred             HHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 023133           77 AFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDH  128 (287)
Q Consensus        77 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  128 (287)
                      .+.+.|++++|+..|++.++.+ |.+..++..+..+|.+.|++++|...+++
T Consensus        13 ~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~   63 (128)
T d1elra_          13 DAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEK   63 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHH
Confidence            3333444444444444443333 23333333344444444444444444433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.44  E-value=3.1e-07  Score=74.49  Aligned_cols=133  Identities=11%  Similarity=-0.043  Sum_probs=66.0

Q ss_pred             CChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHH
Q 023133           82 DDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEF  161 (287)
Q Consensus        82 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  161 (287)
                      +.++.++..+....+.. +++...+..+...+.+.|+.++|...+......   ....++..+...+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY---ICQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHH---HHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC---CHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            34444444444333332 344556666677777777777777766655431   11235666777777788888888888


Q ss_pred             HHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh
Q 023133          162 ASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR  220 (287)
Q Consensus       162 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  220 (287)
                      ++..+.... +...|+.+...+...|+..+|...|.+..... +|-..++..|...+.+
T Consensus       176 ~~A~~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         176 RHAAQLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHHHHHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH
Confidence            877776432 55677778777777888888888887777654 5666677777666554

>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=98.44  E-value=0.00013  Score=55.08  Aligned_cols=190  Identities=10%  Similarity=0.110  Sum_probs=107.3

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCC-------
Q 023133           65 TLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPD-------  137 (287)
Q Consensus        65 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------  137 (287)
                      ..++.....++..|...|.+++...+++...... ..+...++.++..|++.+ .++..+.+..... ...+.       
T Consensus        96 ~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~-~y~~~k~~~~c~  172 (336)
T d1b89a_          96 VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWS-RVNIPKVLRAAE  172 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHST-TSCHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccc-cCCHHHHHHHHH
Confidence            3455556667788888888888888888776543 466777888888888764 3444444443311 01111       


Q ss_pred             -HhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHH-------
Q 023133          138 -LITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLL-------  209 (287)
Q Consensus       138 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------  209 (287)
                       ...|.-++-.|.+.|.+++|..+.   .+.  .++..-....+..+.+..+.+...++.....+.  .|+..       
T Consensus       173 ~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~v  245 (336)
T d1b89a_         173 QAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMVL  245 (336)
T ss_dssp             TTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHHH
T ss_pred             HcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHHh
Confidence             012334444444555555444332   111  223333445566666777777666666655543  23211       


Q ss_pred             ----HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHH
Q 023133          210 ----TYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFE  267 (287)
Q Consensus       210 ----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  267 (287)
                          .-..++..+.+.+++.....+++...+.+   +..+.+++...|...++++.-.+..+
T Consensus       246 ~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---~~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         246 SPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---NKSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             GGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---hHHHHHHHHHHHhCcchhHHHHHHHH
Confidence                01234444555555555556666555444   45789999999999999766554443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=1.5e-07  Score=76.27  Aligned_cols=110  Identities=9%  Similarity=-0.033  Sum_probs=42.3

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           70 CYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        70 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      .+..+...+.+.++.+.|...++...+..   ...++..+.+.+...|++++|...|++..+.. +.+...|+.|...+.
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~  197 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILAS  197 (497)
T ss_dssp             ---------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            33344444444555555555444443321   12334445555555555555555555554442 223345555555555


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHH
Q 023133          150 RVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLR  184 (287)
Q Consensus       150 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  184 (287)
                      ..|+..+|...|.+..... .|...++..|...+.
T Consensus       198 ~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         198 SKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALS  231 (497)
T ss_dssp             HTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHH
Confidence            5555555555555554432 234444555544443

>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=98.39  E-value=0.00018  Score=54.27  Aligned_cols=233  Identities=9%  Similarity=0.099  Sum_probs=141.1

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCCh
Q 023133            5 YIEKLCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDC   84 (287)
Q Consensus         5 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (287)
                      +...|.+.|.++.|..+|..+.        -|..++..+.+.++++.|.+++.+.      -+..+|..+...|.+....
T Consensus        20 i~~~c~~~~lye~A~~lY~~~~--------d~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~~~~l~~~~e~   85 (336)
T d1b89a_          20 VGDRCYDEKMYDAAKLLYNNVS--------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEF   85 (336)
T ss_dssp             ---------CTTTHHHHHHHTT--------CHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHhCC--------CHHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHHHHHHHhCcHH
Confidence            4566778999999999998664        4888899999999999998887654      2566888888888877766


Q ss_pred             HHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023133           85 TQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASM  164 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  164 (287)
                      ..+     .+.......++.....++..|-..|.+++...+++...... .++...++.++..|++.+ .++..+.+...
T Consensus        86 ~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~  158 (336)
T d1b89a_          86 RLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELF  158 (336)
T ss_dssp             HHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHH
T ss_pred             HHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhc
Confidence            543     22233334455566788999999999999999999876432 467778888999888864 44444444332


Q ss_pred             HHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCC--------CcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023133          165 KEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESG--------IKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ  236 (287)
Q Consensus       165 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  236 (287)
                      ..   .   .-...++..|.+.+-++++.-++..+.+..        ..++.......+..+.+..+.+...++.....+
T Consensus       159 s~---~---y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         159 WS---R---VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             ST---T---SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             cc---c---CCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHcchhhhhHHHHHHHHHccCChHHHHHHHHHHHH
Confidence            11   1   112233444444444444444444332110        023333344556667777887777777776665


Q ss_pred             CCCCcchHhHHHHHHHHHhcCChHHHHHHHHH
Q 023133          237 QQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEE  268 (287)
Q Consensus       237 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  268 (287)
                      .  .|  ...+.++......-+.....+.+++
T Consensus       233 ~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k  260 (336)
T d1b89a_         233 F--KP--LLLNDLLMVLSPRLDHTRAVNYFSK  260 (336)
T ss_dssp             H--CG--GGHHHHHHHHGGGCCHHHHHHHHHH
T ss_pred             c--CH--HHHHHHHHHhccCCCHHHHHHHHHh
Confidence            3  23  3345555555555555555555543

>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=98.37  E-value=6.7e-07  Score=65.84  Aligned_cols=128  Identities=6%  Similarity=-0.137  Sum_probs=69.5

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHH
Q 023133          149 GRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESL  228 (287)
Q Consensus       149 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  228 (287)
                      .+.|++++|+..+++..+.... |...+..+...++..|++++|...++...+.. +-+...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHH
Confidence            3566777777777777665433 56667777777777777777777777766542 122333433333333322222221


Q ss_pred             HHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCC
Q 023133          229 RLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAG  278 (287)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  278 (287)
                      .-.......+-+++...+......+...|+.++|.+.++++.+..|..+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~  134 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGF  134 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCE
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCc
Confidence            11111011111222333444455666777888888888777777766553

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.37  E-value=1.1e-05  Score=55.02  Aligned_cols=64  Identities=9%  Similarity=-0.050  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          103 IIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       103 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      ...+..+..+|.+.|++++|+..+++..+.. +.+...|..+..++...|++++|+..|+...+.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            3445555556666666666666666665543 234445556666666666666666666666554

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.36  E-value=6e-06  Score=56.38  Aligned_cols=111  Identities=11%  Similarity=0.119  Sum_probs=80.4

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHh--------------cCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCC
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVS--------------SRTL-SSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASP  100 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--------------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  100 (287)
                      +......+...|+++.|+..|.+.++.              ...| ....+..+..++.+.|++++|+..++++++.. |
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            334455566777777777777665431              0112 33456667888899999999999999999887 6


Q ss_pred             CcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHH
Q 023133          101 ESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDIL  148 (287)
Q Consensus       101 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  148 (287)
                      .+..+|..+..+|.+.|++++|.+.|++..+.. +.+......+..+.
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~~~  155 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVK  155 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            778899999999999999999999999988763 23444454444443

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.36  E-value=1.2e-05  Score=54.74  Aligned_cols=62  Identities=15%  Similarity=0.126  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          105 VVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       105 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      +|+.+..+|.+.|++++|+..++...+.. +.+..+|..+..++...|++++|...|+...+.
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l  127 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV  127 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34445555555555555555555554432 334445555555555555555555555555543

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.35  E-value=1.6e-05  Score=53.25  Aligned_cols=64  Identities=8%  Similarity=0.012  Sum_probs=40.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      .+|+.+..+|.+.|++++|++.+++..+.. +.+..+|..+..++...|++++|...|+...+..
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            355556666666666666666666665543 3355566666666666666666666666666543

>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=98.29  E-value=2.2e-06  Score=56.96  Aligned_cols=81  Identities=11%  Similarity=-0.066  Sum_probs=44.4

Q ss_pred             hcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHH
Q 023133           11 KAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIF   90 (287)
Q Consensus        11 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~   90 (287)
                      +.+.+++|+..|+...+.+|..+.++..+..++...+++..+.+                         ..+.+++|+..
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e-------------------------~~~~~~~Ai~~   63 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISD-------------------------AKQMIQEAITK   63 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHH-------------------------HHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhH-------------------------HHHHHHHHHHH
Confidence            44455566666666655554444555555555544433332222                         12334567777


Q ss_pred             HHHHHhcCCCCcHHHHHHHHHHHHhcC
Q 023133           91 IEEVVQIASPESIIVVNRIIFAFAKSR  117 (287)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~l~~~~~~~~  117 (287)
                      |+++++.. |.+..+|..+..+|...|
T Consensus        64 ~~kAl~l~-P~~~~a~~~lG~~y~~~g   89 (145)
T d1zu2a1          64 FEEALLID-PKKDEAVWCIGNAYTSFA   89 (145)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhc-chhhHHHhhHHHHHHHcc
Confidence            77777665 456666777776666544

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.28  E-value=2.3e-05  Score=53.34  Aligned_cols=79  Identities=3%  Similarity=-0.113  Sum_probs=47.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHH
Q 023133          140 TYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFG  219 (287)
Q Consensus       140 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  219 (287)
                      .|+.+..+|.+.|++++|+..++...+... .+..+|..+..++...|++++|...|.++.+.. +.+......+-.+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~-P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhccc-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            445566666677777777777777666543 256666666677777777777777777766653 334444444433333


Q ss_pred             h
Q 023133          220 R  220 (287)
Q Consensus       220 ~  220 (287)
                      .
T Consensus       144 ~  144 (168)
T d1kt1a1         144 K  144 (168)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.25  E-value=2.2e-05  Score=53.96  Aligned_cols=71  Identities=10%  Similarity=0.045  Sum_probs=41.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHH-----HcCCCCChhH
Q 023133          104 IVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMK-----EAGVVPDFIS  175 (287)
Q Consensus       104 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~  175 (287)
                      ..+..+...+.+.|++++|...++++.+.. +-+...|..++.+|.+.|+.++|++.|+++.     +.|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            345556666666666666666666665543 3355566666666666666666666666652     2455555443

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.24  E-value=2.7e-05  Score=53.49  Aligned_cols=70  Identities=11%  Similarity=0.082  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCcchHh
Q 023133          175 SYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQ-----QQIRPSIYV  245 (287)
Q Consensus       175 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~~  245 (287)
                      .+..+...+.+.|++++|...++++.+.. +-+...|..++.+|...|+..+|++.|+++.+     .|+.|+..+
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            44555555666666666666666665543 34555566666666666666666666665532     355665543

>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=98.19  E-value=5.7e-06  Score=60.75  Aligned_cols=121  Identities=8%  Similarity=0.073  Sum_probs=53.8

Q ss_pred             hcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHH
Q 023133           45 ETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALL  124 (287)
Q Consensus        45 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  124 (287)
                      +.|++++|+..+++.++.. +-+...+..+...++..|++++|.+.++...+.. |.+...+..+...+...+..+++..
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~~   85 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFAQ   85 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHHH
Confidence            4455555555555555442 2344555555555555555555555555555543 2233333333333333232222222


Q ss_pred             HHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 023133          125 IFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEA  167 (287)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  167 (287)
                      -.......+-+++...+......+...|+.++|.+.++++.+.
T Consensus        86 ~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          86 GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            1111111111112222333344455556666666666665443

>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=98.12  E-value=1.6e-05  Score=52.60  Aligned_cols=71  Identities=10%  Similarity=-0.073  Sum_probs=42.8

Q ss_pred             ccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhc----------CCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHH
Q 023133           80 MTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKS----------RQIEKALLIFDHIKGLKCKPDLITYNIVLDILG  149 (287)
Q Consensus        80 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  149 (287)
                      +.+.+++|...++..++.. |.+..++..+..++...          +.+++|+..|++..+.. +.+..+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHH
Confidence            4455677777777777765 56666666666666543          33456666666666543 334556666666655


Q ss_pred             hcC
Q 023133          150 RVG  152 (287)
Q Consensus       150 ~~~  152 (287)
                      ..|
T Consensus        87 ~~g   89 (145)
T d1zu2a1          87 SFA   89 (145)
T ss_dssp             HHH
T ss_pred             Hcc
Confidence            443

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.91  E-value=8.7e-05  Score=49.62  Aligned_cols=93  Identities=16%  Similarity=0.148  Sum_probs=56.1

Q ss_pred             HHHhcCchHHHHHHHHHHhhCCC-cC----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCcc---
Q 023133          182 NLRKIRRLDLCLIYFREMGESGI-KP----------DLLTYTALIDSFGRTGNIEESLRLFNDMKQQ-----QIRPS---  242 (287)
Q Consensus       182 ~~~~~~~~~~a~~~~~~~~~~~~-~~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~---  242 (287)
                      .+.+.|++++|+..|++.++... .|          ....|+.+..+|...|++++|...+++..+.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            34445666666666666553100 01          1345667777777778877777777776532     11111   


Q ss_pred             --hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Q 023133          243 --IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLS  274 (287)
Q Consensus       243 --~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  274 (287)
                        ...+..+..+|...|++++|...|+++....|
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence              22456677778888888888888888755433

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.85  E-value=7.5e-05  Score=45.25  Aligned_cols=65  Identities=11%  Similarity=0.009  Sum_probs=33.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC-----CCCc-chHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCC
Q 023133          213 ALIDSFGRTGNIEESLRLFNDMKQQ-----QIRP-SIYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLA  277 (287)
Q Consensus       213 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  277 (287)
                      .+...+.+.|++++|...|++..+.     ...+ ...++..+..++.+.|++++|.+.++++.+..|+.+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~   80 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQ   80 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCH
Confidence            4455555555555555555555432     0011 133455555556666666666666666655555543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.76  E-value=0.0005  Score=45.75  Aligned_cols=88  Identities=15%  Similarity=0.150  Sum_probs=45.5

Q ss_pred             HhccCChHHHHHHHHHHHhcCCC-C----------cHHHHHHHHHHHHhcCCHHHHHHHHHHHhcC-----CCCCC----
Q 023133           78 FIMTDDCTQLLIFIEEVVQIASP-E----------SIIVVNRIIFAFAKSRQIEKALLIFDHIKGL-----KCKPD----  137 (287)
Q Consensus        78 ~~~~~~~~~a~~~~~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~----  137 (287)
                      +...|++++|++.|++.++.... |          ....|+.+..+|.+.|++++|...+++..+.     ...++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            34445566666666555543211 1          1345666666666666666666666555421     00111    


Q ss_pred             -HhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023133          138 -LITYNIVLDILGRVGRVNDMLNEFASMK  165 (287)
Q Consensus       138 -~~~~~~l~~~~~~~~~~~~a~~~~~~~~  165 (287)
                       ...++.+..+|...|++++|+..|++..
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence             1134445566666666666666666543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=0.00056  Score=41.16  Aligned_cols=63  Identities=10%  Similarity=0.062  Sum_probs=33.3

Q ss_pred             HHHHHHHHhhcCChhHHHHHHHHHHHhcC-----CCC-HHHHHHHHHHHhccCChHHHHHHHHHHHhcC
Q 023133           36 YNCVLVASAETNDIDLSFQILKDLLVSSR-----TLS-SDCYTNFARAFIMTDDCTQLLIFIEEVVQIA   98 (287)
Q Consensus        36 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~   98 (287)
                      +..+...+.+.|+++.|+..|++.++...     .++ ..++..+..++.+.|++++|...++++++..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~   76 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC
Confidence            34555556666666666666665543310     111 2345555555555666666666666555554

>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=97.31  E-value=0.0071  Score=38.64  Aligned_cols=110  Identities=10%  Similarity=0.031  Sum_probs=49.9

Q ss_pred             CHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHh----cCchHHHH
Q 023133          118 QIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRK----IRRLDLCL  193 (287)
Q Consensus       118 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~  193 (287)
                      ++++|.+.|++..+.|   +......|.  .....+.++|+.++++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g---~~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELN---EMFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTT---CTTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCC---Chhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            5566666666665554   112222222  123345555555555555544   23333334333332    23445555


Q ss_pred             HHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 023133          194 IYFREMGESGIKPDLLTYTALIDSFGR----TGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       194 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  238 (287)
                      ++|++..+.|   +......|...|..    ..+.++|.++|++..+.|
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCC
Confidence            5555555544   22233333333333    234555555555555444

>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=97.31  E-value=0.0072  Score=38.59  Aligned_cols=49  Identities=8%  Similarity=0.045  Sum_probs=21.4

Q ss_pred             CchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCC
Q 023133          187 RRLDLCLIYFREMGESGIKPDLLTYTALIDSFGR----TGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       187 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~  238 (287)
                      .+.++|.+++++..+.|   +......|...|..    ..+.++|.++|++..+.|
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g   89 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN   89 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC
Confidence            34445555555544443   22333333333332    234455555555555443

>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=97.18  E-value=0.009  Score=37.13  Aligned_cols=140  Identities=13%  Similarity=0.066  Sum_probs=86.1

Q ss_pred             hccCChHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHH
Q 023133           79 IMTDDCTQLLIFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDML  158 (287)
Q Consensus        79 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  158 (287)
                      .-.|..++..+++.+.....   +..-||-++--....-+-+-..++++.+-+   ..|...          .++.....
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~---~FDls~----------C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFDLDK----------CQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSCGGG----------CSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhh---hcCchh----------hhcHHHHH
Confidence            34566677777776666542   344445455444555555556666665543   223221          22222222


Q ss_pred             HHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 023133          159 NEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQ  238 (287)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  238 (287)
                      ..+-.+     ..+...+...+.....+|+-+.-.+++..+.+.+ .|++...-.+..+|.+.|...++-+++.+.-+.|
T Consensus        77 ~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            222111     1134556667778888888888888888877755 7788888888888999999999988888888877


Q ss_pred             CC
Q 023133          239 IR  240 (287)
Q Consensus       239 ~~  240 (287)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            54

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.79  E-value=0.014  Score=36.39  Aligned_cols=76  Identities=7%  Similarity=0.035  Sum_probs=47.2

Q ss_pred             cCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCcc-hHhHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCCChh
Q 023133          205 KPDLLTYTALIDSFGRTG---NIEESLRLFNDMKQQQIRPS-IYVYRSLIDNLKKMGKVDLAMTIFEEMNSSLSDLAGPK  280 (287)
Q Consensus       205 ~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  280 (287)
                      .|+..|--....++.++.   +.++++.+++++.+.+ +.+ ...+-.|.-+|.+.|++++|.++++.+.+..|++....
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~  110 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  110 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHH
Confidence            345555445555555543   3556777777776542 222 24555666677778888888888888877777766544


Q ss_pred             h
Q 023133          281 D  281 (287)
Q Consensus       281 ~  281 (287)
                      .
T Consensus       111 ~  111 (124)
T d2pqrb1         111 A  111 (124)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.42  E-value=0.043  Score=34.05  Aligned_cols=141  Identities=15%  Similarity=0.121  Sum_probs=74.3

Q ss_pred             HHhcCChhHHHHHHHHHhhcCCCCchhHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhccCChHHHH
Q 023133            9 LCKAGNVSAAVRLLQSLRDKNIFLPNAYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMTDDCTQLL   88 (287)
Q Consensus         9 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~   88 (287)
                      +...|.+++-.++..+.......  .-|+.++--....-+-+-..++++..   |...|..          ..++.....
T Consensus        12 ~ildG~ve~Gveii~k~~~ss~~--~E~NW~ICNiidt~dC~~v~~~Ld~I---G~~FDls----------~C~Nlk~vv   76 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSSTK--SEYNWFICNLLESIDCRYMFQVLDKI---GSYFDLD----------KCQNLKSVV   76 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCH--HHHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCGG----------GCSCTHHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccCCc--cccceeeeecccccchHHHHHHHHHH---hhhcCch----------hhhcHHHHH
Confidence            55678999999999888766433  35666666665655555555555554   2222221          112222211


Q ss_pred             HHHHHHHhcCCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Q 023133           89 IFIEEVVQIASPESIIVVNRIIFAFAKSRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAG  168 (287)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  168 (287)
                      .-+-.+     ..+....+..++...+.|.-+.-.+++..+.+.+ +++....-.+..+|.+.|...++-+++.+.-+.|
T Consensus        77 ~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G  150 (161)
T d1wy6a1          77 ECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKG  150 (161)
T ss_dssp             HHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHh
Confidence            111111     1122334445555556666666666666554433 4555555555566666666666666666665555


Q ss_pred             CC
Q 023133          169 VV  170 (287)
Q Consensus       169 ~~  170 (287)
                      ++
T Consensus       151 ~K  152 (161)
T d1wy6a1         151 EK  152 (161)
T ss_dssp             CH
T ss_pred             HH
Confidence            43

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.39  E-value=0.14  Score=31.68  Aligned_cols=46  Identities=9%  Similarity=-0.017  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHhcCCCCc-HHHHHHHHHHHHhcCCHHHHHHHHHHHhc
Q 023133           85 TQLLIFIEEVVQIASPES-IIVVNRIIFAFAKSRQIEKALLIFDHIKG  131 (287)
Q Consensus        85 ~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  131 (287)
                      +.++.+++++.+.+ +.+ ...+..|.-+|.+.|++++|.+.++.+.+
T Consensus        55 ~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          55 RLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            34444444444432 111 12333344444455555555555554444

>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=92.04  E-value=0.61  Score=27.20  Aligned_cols=63  Identities=13%  Similarity=0.153  Sum_probs=42.7

Q ss_pred             chHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHHHHH
Q 023133          188 RLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRSLID  251 (287)
Q Consensus       188 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~li~  251 (287)
                      +.-++.+-+..+....+.|++....+.+.+|.+.+++..|.++|+-.+.+ ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            34456666677777777788888888888888888888888888777643 2233445555543

>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=90.44  E-value=0.94  Score=26.40  Aligned_cols=62  Identities=11%  Similarity=0.206  Sum_probs=39.4

Q ss_pred             CHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHH
Q 023133          153 RVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALI  215 (287)
Q Consensus       153 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  215 (287)
                      +.-++.+-++.+......|++....+.+++|.+.+++..|.++++.+.... .++...|..++
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            455566666666666677777777777777777777777777777666431 22334555444

>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=88.40  E-value=4.2  Score=31.13  Aligned_cols=116  Identities=10%  Similarity=-0.060  Sum_probs=73.4

Q ss_pred             CCHHHHHHHHHHHHHcCCCCChhHHHHH----HHHHHhcCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCCHHHH
Q 023133          152 GRVNDMLNEFASMKEAGVVPDFISYNTL----LNNLRKIRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGNIEES  227 (287)
Q Consensus       152 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  227 (287)
                      .+.+.+..++......... +...+..+    .......+..+.+...+......+  .+.......+......+++..+
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            4677788877777654322 22222222    222334566777877777766553  3444444455556677899999


Q ss_pred             HHHHHHHHhCCCCcchHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 023133          228 LRLFNDMKQQQIRPSIYVYRSLIDNLKKMGKVDLAMTIFEEMNS  271 (287)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  271 (287)
                      ...++.|.... .....-.--+..++...|+.++|..+|..+..
T Consensus       305 ~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         305 NTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            99998876432 22233445567888899999999999998754

>d2nsza1 a.118.1.14 (A:322-450) Programmed cell death 4, PDCD4 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Programmed cell death 4, PDCD4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.37  E-value=1.6  Score=26.96  Aligned_cols=24  Identities=21%  Similarity=0.351  Sum_probs=15.8

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHh
Q 023133            3 NGYIEKLCKAGNVSAAVRLLQSLR   26 (287)
Q Consensus         3 ~~li~~~~~~g~~~~a~~~~~~~~   26 (287)
                      +.++.-|...|+.++|...++++.
T Consensus        11 ~~ll~EY~~~~D~~Ea~~~l~eL~   34 (129)
T d2nsza1          11 DMLLKEYLLSGDISEAEHCLKELE   34 (129)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcC
Confidence            356666667777777777666664

>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=81.91  E-value=9  Score=29.19  Aligned_cols=148  Identities=8%  Similarity=-0.120  Sum_probs=88.7

Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCHhhHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCchHHHHHH
Q 023133          116 SRQIEKALLIFDHIKGLKCKPDLITYNIVLDILGRVGRVNDMLNEFASMKEAGVVPDFISYNTLLNNLRKIRRLDLCLIY  195 (287)
Q Consensus       116 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  195 (287)
                      .+..+.+...+......+  .+.......+......+++..+...+..|.... .......--+.+++...|+.+.|...
T Consensus       265 ~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             TTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHH
Confidence            445566666665555442  233333344455566778888888877765331 12344556677788888888888888


Q ss_pred             HHHHhhC------------CCcCC------------HH---HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCcchHhHHH
Q 023133          196 FREMGES------------GIKPD------------LL---TYTALIDSFGRTGNIEESLRLFNDMKQQQIRPSIYVYRS  248 (287)
Q Consensus       196 ~~~~~~~------------~~~~~------------~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  248 (287)
                      |......            |.+++            ..   .-..-+..+...|....|...+..+.+.   .+......
T Consensus       342 ~~~~a~~~~fYG~LAa~~Lg~~~~~~~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~---~~~~~~~~  418 (450)
T d1qsaa1         342 LHQLMQQRGFYPMVAAQRIGEEYELKIDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS---KSKTEQAQ  418 (450)
T ss_dssp             HHHHHTSCSHHHHHHHHHTTCCCCCCCCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CCHHHHHH
T ss_pred             HHHHhcCCChHHHHHHHHcCCCCCCCcCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhC---CCHHHHHH
Confidence            8776432            11100            00   0012244566778888888888777654   24445556


Q ss_pred             HHHHHHhcCChHHHHHHHHHH
Q 023133          249 LIDNLKKMGKVDLAMTIFEEM  269 (287)
Q Consensus       249 li~~~~~~g~~~~a~~~~~~~  269 (287)
                      +.....+.|.++.|+....+.
T Consensus       419 la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         419 LARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCCChhHHHHHHHHH
Confidence            677777888888887766655

>d3bgea1 a.80.1.2 (A:251-434) Uncharacterized protein NTHI1458 {Haemophilus influenzae [TaxId: 727]}

class: All alpha proteins
fold: post-AAA+ oligomerization domain-like
superfamily: post-AAA+ oligomerization domain-like
family: MgsA/YrvN C-terminal domain-like
domain: Uncharacterized protein NTHI1458
species: Haemophilus influenzae [TaxId: 727]

Probab=81.17  E-value=5.5  Score=26.21  Aligned_cols=53  Identities=15%  Similarity=0.185  Sum_probs=27.2

Q ss_pred             cCchHHHHHHHHHHhhCCCcCCHHHHHHHHHHHHhcCC-----HHHHHHHHHHHHhCC
Q 023133          186 IRRLDLCLIYFREMGESGIKPDLLTYTALIDSFGRTGN-----IEESLRLFNDMKQQQ  238 (287)
Q Consensus       186 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----~~~a~~~~~~~~~~~  238 (287)
                      ..+.+.|+-.+.+|++.|-.|....-..++.+....|.     ...|...++....-|
T Consensus        17 gSD~dAaly~larml~~GeDp~~i~RRl~~~AsEDIGlAdp~al~~a~~~~~a~~~iG   74 (184)
T d3bgea1          17 GSAPDAALYWYARILTAGGDPLYVARRLLAIASEDVGNADPRAMQVALAAWDCFTRVG   74 (184)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHTTGGGCTTHHHHHHHHHHHHHHTC
T ss_pred             cCCccHHHHHHHHHHHcCCChHHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHhC
Confidence            34566666666666666555544444444444444443     234444555555544

>d2f6ma1 a.2.17.1 (A:322-385) Vacuolar protein sorting-associated protein 23, VPS23 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: Endosomal sorting complex assembly domain
family: VPS23 C-terminal domain
domain: Vacuolar protein sorting-associated protein 23, VPS23
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.69  E-value=0.94  Score=23.93  Aligned_cols=46  Identities=13%  Similarity=0.189  Sum_probs=23.0

Q ss_pred             hHHHHHHHHhhcCChhHHHHHHHHHHHhcCCCCHHHHHHHHHHHhcc
Q 023133           35 AYNCVLVASAETNDIDLSFQILKDLLVSSRTLSSDCYTNFARAFIMT   81 (287)
Q Consensus        35 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~   81 (287)
                      +++.++..+++..-.++++..+.+..+.|. .+..+|..-.+.+++.
T Consensus         3 a~nQl~~l~Aed~AieDaiy~L~~aL~~G~-I~~d~ylK~vR~LaRe   48 (64)
T d2f6ma1           3 GLNQLYNLVAQDYALTDTIEALSRMLHRGT-IPLDTFVKQGRELARQ   48 (64)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-SCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-cCHHHHHHHHHHHHHH
Confidence            344555555555555555555555555552 2344454444444443